* installing *source* package ‘hictkR’ ... ** this is package ‘hictkR’ version ‘0.1.0’ ** using staged installation TMPDIR='/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/' % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 65996 100 65996 0 0 111k 0 --:--:-- --:--:-- --:--:-- 111k downloading uv 0.8.5 x86_64-unknown-linux-gnu no checksums to verify installing to /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp//uv-install uv uvx everything's installed! Downloading cpython-3.13.5-linux-x86_64-gnu (download) (33.8MiB) Downloading cpython-3.13.5-linux-x86_64-gnu (download) Installed Python 3.13.5 in 1.13s + cpython-3.13.5-linux-x86_64-gnu warning: `/home/hornik/.local/bin` is not on your PATH. To use installed Python executables, add the directory to your PATH. Using CPython 3.13.5 Creating virtual environment at: build/tmp//venv Using Python 3.13.5 environment at: build/tmp/venv Resolved 17 packages in 1.61s Building conan==2.19.1 Building patch-ng==1.18.1 Downloading cmake (26.5MiB) Built patch-ng==1.18.1 Built conan==2.19.1 Downloading cmake Prepared 17 packages in 1.00s Installed 17 packages in 53ms + certifi==2025.8.3 + charset-normalizer==3.4.3 + cmake==3.31.6 + colorama==0.4.6 + conan==2.19.1 + distro==1.8.0 + fasteners==0.20 + idna==3.10 + jinja2==3.1.6 + markupsafe==3.0.2 + ninja==1.13.0 + patch-ng==1.18.1 + python-dateutil==2.9.0.post0 + pyyaml==6.0.2 + requests==2.32.5 + six==1.17.0 + urllib3==2.0.7 /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp//venv//bin//conan Conan version 2.19.1 [2025-08-28 12:59:19,670] INFO: Using /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/tmpn5gzzukt as tmpdir [2025-08-28 12:59:19,670] INFO: skipping venv creation... [2025-08-28 12:59:19,670] INFO: CONAN_HOME=/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2 detect_api: CC and CXX: /usr/bin/clang, /usr/bin/clang++ detect_api: Found clang 19.1 detect_api: clang>=8, using the major as version detect_api: gcc C++ standard library: libstdc++11 Detected profile: WARN: This profile is a guess of your environment, please check it. WARN: The output of this command is not guaranteed to be stable and can change in future Conan versions. WARN: Use your own profile files for stability. Saving detected profile to /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/profiles/hictkR [settings] arch=x86_64 build_type=Release compiler=clang compiler.cppstd=gnu17 compiler.libcxx=libstdc++11 compiler.version=19 os=Linux [2025-08-28 12:59:20,722] INFO: [settings] arch=x86_64 build_type=Release compiler=clang compiler.cppstd=gnu17 compiler.libcxx=libstdc++11 compiler.version=19 os=Linux ======== Exporting recipe to the cache ======== hictk/2.1.4: Exporting package recipe: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/tools/conanfile.py hictk/2.1.4: Calling export_sources() hictk/2.1.4: Copied 1 '.py' file: conanfile.py hictk/2.1.4: Copied 1 '.patch' file: hictk_v2.1.4_eigen_include.patch hictk/2.1.4: Exported to cache folder: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/hictk30e1d154bc342/e hictk/2.1.4: Exported: hictk/2.1.4#ac0d26a8f881d628590b17403df6188c (2025-08-28 10:59:21 UTC) ======== Input profiles ======== Profile host: [settings] arch=x86_64 build_type=Release compiler=clang compiler.cppstd=17 compiler.libcxx=libstdc++11 compiler.version=19 os=Linux [conf] tools.cmake.cmaketoolchain:generator=Ninja Profile build: [settings] arch=x86_64 build_type=Release compiler=clang compiler.cppstd=gnu17 compiler.libcxx=libstdc++11 compiler.version=19 os=Linux ======== Computing dependency graph ======== hictk/2.1.4: Checking remote: conancenter Connecting to remote 'conancenter' anonymously arrow/20.0.0: Not found in local cache, looking in remotes... arrow/20.0.0: Checking remote: conancenter arrow/20.0.0: Downloaded recipe revision 6e04404a336dd16f08062f6923e6f8f1 mimalloc/1.7.6: Not found in local cache, looking in remotes... mimalloc/1.7.6: Checking remote: conancenter mimalloc/1.7.6: Downloaded recipe revision 38e7b2fbff43efcae957e6a530a62b76 cmake/3.31.8: Not found in local cache, looking in remotes... cmake/3.31.8: Checking remote: conancenter cmake/3.31.8: Downloaded recipe revision dde3bde00bb843687e55aea5afa0e220 xsimd/13.0.0: Not found in local cache, looking in remotes... xsimd/13.0.0: Checking remote: conancenter xsimd/13.0.0: Downloaded recipe revision 3e7543dc526b0f612fe291e0f198c9dc re2/20230301: Not found in local cache, looking in remotes... re2/20230301: Checking remote: conancenter re2/20230301: Downloaded recipe revision dfd6e2bf050eb90ddd8729cfb4c844a4 bshoshany-thread-pool/5.0.0: Not found in local cache, looking in remotes... bshoshany-thread-pool/5.0.0: Checking remote: conancenter bshoshany-thread-pool/5.0.0: Downloaded recipe revision d94da300363f0c35b8f41b2c5490c94d concurrentqueue/1.0.4: Not found in local cache, looking in remotes... concurrentqueue/1.0.4: Checking remote: conancenter concurrentqueue/1.0.4: Downloaded recipe revision 1e48e1c712bcfd892087c9c622a51502 eigen/3.4.90-unstable+git.2025.08.15: Not found in local cache, looking in remotes... eigen/3.4.90-unstable+git.2025.08.15: Checking remote: conancenter eigen/3.4.90-unstable+git.2025.08.15: Downloaded recipe revision b407f03f085cdb246f6bcbadd84fe9db fast_float/8.0.2: Not found in local cache, looking in remotes... fast_float/8.0.2: Checking remote: conancenter fast_float/8.0.2: Downloaded recipe revision 846ad0ebab16bc265c511095c3b490e9 fmt/11.2.0: Not found in local cache, looking in remotes... fmt/11.2.0: Checking remote: conancenter fmt/11.2.0: Downloaded recipe revision 579bb2cdf4a7607621beea4eb4651e0f hdf5/1.14.6: Not found in local cache, looking in remotes... hdf5/1.14.6: Checking remote: conancenter hdf5/1.14.6: Downloaded recipe revision 6f1acd01d23d00735fe97300f4d5980c zlib/1.3.1: Not found in local cache, looking in remotes... zlib/1.3.1: Checking remote: conancenter zlib/1.3.1: Downloaded recipe revision b8bc2603263cf7eccbd6e17e66b0ed76 highfive/2.10.0: Not found in local cache, looking in remotes... highfive/2.10.0: Checking remote: conancenter highfive/2.10.0: Downloaded recipe revision 75c849a0d940b2d4dae6055915132690 libdeflate/1.23: Not found in local cache, looking in remotes... libdeflate/1.23: Checking remote: conancenter libdeflate/1.23: Downloaded recipe revision 4994bea7cf7e93789da161fac8e26a53 parallel-hashmap/2.0.0: Not found in local cache, looking in remotes... parallel-hashmap/2.0.0: Checking remote: conancenter parallel-hashmap/2.0.0: Downloaded recipe revision 82acae64ffe2693fff5fb3f9df8e1746 readerwriterqueue/1.0.6: Not found in local cache, looking in remotes... readerwriterqueue/1.0.6: Checking remote: conancenter readerwriterqueue/1.0.6: Downloaded recipe revision aaa5ff6fac60c2aee591e9e51b063b83 span-lite/0.11.0: Not found in local cache, looking in remotes... span-lite/0.11.0: Checking remote: conancenter span-lite/0.11.0: Downloaded recipe revision 519fd49fff711674cfed8cd17d4ed422 spdlog/1.15.3: Not found in local cache, looking in remotes... spdlog/1.15.3: Checking remote: conancenter spdlog/1.15.3: Downloaded recipe revision 3ca0e9e6b83af4d0151e26541d140c86 zstd/1.5.7: Not found in local cache, looking in remotes... zstd/1.5.7: Checking remote: conancenter zstd/1.5.7: Downloaded recipe revision fde461c0d847a22f16d3066774f61b11 cmake/4.1.0: Not found in local cache, looking in remotes... cmake/4.1.0: Checking remote: conancenter cmake/4.1.0: Downloaded recipe revision c45377ac8029e0a1738a0c40269991c3 Graph root cli Requirements arrow/20.0.0#6e04404a336dd16f08062f6923e6f8f1 - Downloaded (conancenter) bshoshany-thread-pool/5.0.0#d94da300363f0c35b8f41b2c5490c94d - Downloaded (conancenter) concurrentqueue/1.0.4#1e48e1c712bcfd892087c9c622a51502 - Downloaded (conancenter) eigen/3.4.90-unstable+git.2025.08.15#b407f03f085cdb246f6bcbadd84fe9db - Downloaded (conancenter) fast_float/8.0.2#846ad0ebab16bc265c511095c3b490e9 - Downloaded (conancenter) fmt/11.2.0#579bb2cdf4a7607621beea4eb4651e0f - Downloaded (conancenter) hdf5/1.14.6#6f1acd01d23d00735fe97300f4d5980c - Downloaded (conancenter) hictk/2.1.4#ac0d26a8f881d628590b17403df6188c - Not in remote highfive/2.10.0#75c849a0d940b2d4dae6055915132690 - Downloaded (conancenter) libdeflate/1.23#4994bea7cf7e93789da161fac8e26a53 - Downloaded (conancenter) mimalloc/1.7.6#38e7b2fbff43efcae957e6a530a62b76 - Downloaded (conancenter) parallel-hashmap/2.0.0#82acae64ffe2693fff5fb3f9df8e1746 - Downloaded (conancenter) re2/20230301#dfd6e2bf050eb90ddd8729cfb4c844a4 - Downloaded (conancenter) readerwriterqueue/1.0.6#aaa5ff6fac60c2aee591e9e51b063b83 - Downloaded (conancenter) span-lite/0.11.0#519fd49fff711674cfed8cd17d4ed422 - Downloaded (conancenter) spdlog/1.15.3#3ca0e9e6b83af4d0151e26541d140c86 - Downloaded (conancenter) xsimd/13.0.0#3e7543dc526b0f612fe291e0f198c9dc - Downloaded (conancenter) zlib/1.3.1#b8bc2603263cf7eccbd6e17e66b0ed76 - Downloaded (conancenter) zstd/1.5.7#fde461c0d847a22f16d3066774f61b11 - Downloaded (conancenter) Build requirements cmake/3.31.8#dde3bde00bb843687e55aea5afa0e220 - Downloaded (conancenter) cmake/4.1.0#c45377ac8029e0a1738a0c40269991c3 - Downloaded (conancenter) Resolved version ranges cmake/[>=3.18 <4]: cmake/3.31.8 cmake/[>=3.25 <4]: cmake/3.31.8 cmake/[>=3.25]: cmake/4.1.0 zlib/[>=1.2.11 <2]: zlib/1.3.1 Overrides fmt/11.2.0#579bb2cdf4a7607621beea4eb4651e0f: [None, 'fmt/11.2.0#579bb2cdf4a7607621beea4eb4651e0f'] hdf5/1.14.3: ['hdf5/1.14.6#6f1acd01d23d00735fe97300f4d5980c'] ======== Computing necessary packages ======== re2/20230301: Main binary package 'dc5068ba5fe1b6dbc8bed0d8e329d7004b0a76d9' missing re2/20230301: Checking 11 compatible configurations re2/20230301: 'a9885f3e322ab21e4d4c11777f78e7606066f11f': compiler.cppstd=11 re2/20230301: '7dadd422bf0b948b5bd519abc3755885cade421b': compiler.cppstd=gnu11 re2/20230301: '49db67e648ba8868ae47f757f6839b7e13fb6bc1': compiler.cppstd=14 re2/20230301: '47510377cb8e3f0df2dd6c014c15e4d36f88e880': compiler.cppstd=gnu14 re2/20230301: '827e3d345c5ef24aa8a348ee73a6583b67d4c361': compiler.cppstd=gnu17 re2/20230301: 'db11f9a53b6099eb46fba706edda9bbb1a21627f': compiler.cppstd=20 re2/20230301: '0a2bf837f8647f0bb78ced353355ab2099506b42': compiler.cppstd=gnu20 re2/20230301: '8006c24732668bb331aed676dcb21d571cd60725': compiler.cppstd=23 re2/20230301: '0e1e1b81005d7178cd2171db674e845d215c8e38': compiler.cppstd=gnu23 re2/20230301: 'e34f116fc5d5110f4812fbb20f8a0457e03e5726': compiler.cppstd=26 re2/20230301: '4e469e57c7755e474b145f0caad1ebae573b8de6': compiler.cppstd=gnu26 mimalloc/1.7.6: Main binary package '7182e778f8a09f43d949188464662de5f4652380' missing mimalloc/1.7.6: Checking 13 compatible configurations mimalloc/1.7.6: '5da10248d6fb917cb22afed60f4d46b4bf60b2d4': compiler.cppstd=98 mimalloc/1.7.6: '881ebe5a4d282cff258fdb96917dd89337a45baf': compiler.cppstd=gnu98 mimalloc/1.7.6: '9a648ceace6cf5afb93f474c2349a73928340fa1': compiler.cppstd=11 mimalloc/1.7.6: '1ad138fe2a1530e64b5d36f52841d8088d91abc1': compiler.cppstd=gnu11 mimalloc/1.7.6: '7c926a75ca6f07d80ccd2df42c93903c090ef4d7': compiler.cppstd=14 mimalloc/1.7.6: '9b043b7d42d67c302384263ef800a6e2c66084cd': compiler.cppstd=gnu14 mimalloc/1.7.6: 'f7690eaff0723a1fe2303346e33f3f27f41dea55': compiler.cppstd=gnu17 mimalloc/1.7.6: '945bc955f582716074279a9a8443e3e45fbc4a13': compiler.cppstd=20 mimalloc/1.7.6: '07ced37bfc94307d9eb942ab695a247f038fe649': compiler.cppstd=gnu20 mimalloc/1.7.6: 'eafc4cd7c146e30c63412334bf9c364d3f9c6665': compiler.cppstd=23 mimalloc/1.7.6: 'f3dacdeec408a947faf63c83012a4a7b34e21cea': compiler.cppstd=gnu23 mimalloc/1.7.6: 'dfdc9b3172f0f2e561df5ed7570b9105d2d343d1': compiler.cppstd=26 mimalloc/1.7.6: '7eacd906f87015f056a1eb359508db1ed563f58a': compiler.cppstd=gnu26 arrow/20.0.0: Main binary package '51eeeffaf29d9c85dd1e3b891e9e982f9bd79c56' missing arrow/20.0.0: Checking 7 compatible configurations arrow/20.0.0: 'fe0c6f07703b16a71bf98a15e8c593ca3ace618c': compiler.cppstd=gnu17 arrow/20.0.0: '4aead764c2e4d18eaba99daf48c2ad0c2a2a675c': compiler.cppstd=20 arrow/20.0.0: '3cceb0b611e0160492cc6feb571a3af6f1166851': compiler.cppstd=gnu20 arrow/20.0.0: '3932f43b5cf40c0fa133972bb3def7bd81d6a083': compiler.cppstd=23 arrow/20.0.0: '79f17585add96a473ea599008282727a5d2bd180': compiler.cppstd=gnu23 arrow/20.0.0: 'ead4de5bf20fab65dbaddbbcb7b223bce2828e07': compiler.cppstd=26 arrow/20.0.0: '82db03939fa48d9884b22708f2a610a39980ad95': compiler.cppstd=gnu26 hictk/2.1.4: Forced build from source Requirements arrow/20.0.0#6e04404a336dd16f08062f6923e6f8f1:51eeeffaf29d9c85dd1e3b891e9e982f9bd79c56 - Build bshoshany-thread-pool/5.0.0#d94da300363f0c35b8f41b2c5490c94d:da39a3ee5e6b4b0d3255bfef95601890afd80709#97739a2d693ef762e87869abb6ee8f74 - Download (conancenter) concurrentqueue/1.0.4#1e48e1c712bcfd892087c9c622a51502:da39a3ee5e6b4b0d3255bfef95601890afd80709#d76553f653b5b8bdf7b424d83820fea4 - Download (conancenter) eigen/3.4.90-unstable+git.2025.08.15#b407f03f085cdb246f6bcbadd84fe9db:da39a3ee5e6b4b0d3255bfef95601890afd80709#e5ac635f9d0ddbf15482022ca1b3af33 - Download (conancenter) fast_float/8.0.2#846ad0ebab16bc265c511095c3b490e9:da39a3ee5e6b4b0d3255bfef95601890afd80709#71fc9357d5e2977298ff6419eed246d0 - Download (conancenter) fmt/11.2.0#579bb2cdf4a7607621beea4eb4651e0f:da39a3ee5e6b4b0d3255bfef95601890afd80709#2d083f45b55c6afb8ec50fb67dd3c16e - Download (conancenter) hdf5/1.14.6#6f1acd01d23d00735fe97300f4d5980c:459c23bd7d939071d1d944c503840db7579be036 - Build hictk/2.1.4#ac0d26a8f881d628590b17403df6188c:da39a3ee5e6b4b0d3255bfef95601890afd80709 - Build highfive/2.10.0#75c849a0d940b2d4dae6055915132690:da39a3ee5e6b4b0d3255bfef95601890afd80709#858d2e0aff49c826f1f2da54c7bd5435 - Download (conancenter) libdeflate/1.23#4994bea7cf7e93789da161fac8e26a53:035983102d94f5d9d7256017a5fd89651d1294c3 - Build mimalloc/1.7.6#38e7b2fbff43efcae957e6a530a62b76:7182e778f8a09f43d949188464662de5f4652380 - Build parallel-hashmap/2.0.0#82acae64ffe2693fff5fb3f9df8e1746:da39a3ee5e6b4b0d3255bfef95601890afd80709#4e55822c19c91463e20e418d07bb83c0 - Download (conancenter) re2/20230301#dfd6e2bf050eb90ddd8729cfb4c844a4:dc5068ba5fe1b6dbc8bed0d8e329d7004b0a76d9 - Build readerwriterqueue/1.0.6#aaa5ff6fac60c2aee591e9e51b063b83:da39a3ee5e6b4b0d3255bfef95601890afd80709#ecdfc46fa6d77a9ac39568d286082d22 - Download (conancenter) span-lite/0.11.0#519fd49fff711674cfed8cd17d4ed422:da39a3ee5e6b4b0d3255bfef95601890afd80709#4688663223fa1898bdb770089ef588f0 - Download (conancenter) spdlog/1.15.3#3ca0e9e6b83af4d0151e26541d140c86:da39a3ee5e6b4b0d3255bfef95601890afd80709#cd9a0d7c5d05bf77172be45346efa8c3 - Download (conancenter) xsimd/13.0.0#3e7543dc526b0f612fe291e0f198c9dc:da39a3ee5e6b4b0d3255bfef95601890afd80709#06eff08e8fe56b1741f512fb95cc3f8c - Download (conancenter) zlib/1.3.1#b8bc2603263cf7eccbd6e17e66b0ed76:035983102d94f5d9d7256017a5fd89651d1294c3 - Build zstd/1.5.7#fde461c0d847a22f16d3066774f61b11:9308e58c41ad3f278ab5d5003e836d4248b52a61 - Build Build requirements cmake/3.31.8#dde3bde00bb843687e55aea5afa0e220:63fead0844576fc02943e16909f08fcdddd6f44b#9feaf548d07371f438403f16014f443e - Download (conancenter) cmake/4.1.0#c45377ac8029e0a1738a0c40269991c3:63fead0844576fc02943e16909f08fcdddd6f44b#a2b81d87a8b8afe45d87eef0576f0f66 - Download (conancenter) ======== Installing packages ======== -------- Downloading 13 packages -------- bshoshany-thread-pool/5.0.0: Retrieving package da39a3ee5e6b4b0d3255bfef95601890afd80709 from remote 'conancenter' bshoshany-thread-pool/5.0.0: Package installed da39a3ee5e6b4b0d3255bfef95601890afd80709 bshoshany-thread-pool/5.0.0: Downloaded package revision 97739a2d693ef762e87869abb6ee8f74 cmake/3.31.8: Retrieving package 63fead0844576fc02943e16909f08fcdddd6f44b from remote 'conancenter' cmake/3.31.8: Downloading 45.1MB conan_package.tgz cmake/3.31.8: Decompressing 45.1MB conan_package.tgz cmake/3.31.8: Package installed 63fead0844576fc02943e16909f08fcdddd6f44b cmake/3.31.8: Downloaded package revision 9feaf548d07371f438403f16014f443e cmake/4.1.0: Retrieving package 63fead0844576fc02943e16909f08fcdddd6f44b from remote 'conancenter' cmake/4.1.0: Downloading 45.7MB conan_package.tgz cmake/4.1.0: Decompressing 45.7MB conan_package.tgz cmake/4.1.0: Package installed 63fead0844576fc02943e16909f08fcdddd6f44b cmake/4.1.0: Downloaded package revision a2b81d87a8b8afe45d87eef0576f0f66 concurrentqueue/1.0.4: Retrieving package da39a3ee5e6b4b0d3255bfef95601890afd80709 from remote 'conancenter' concurrentqueue/1.0.4: Package installed da39a3ee5e6b4b0d3255bfef95601890afd80709 concurrentqueue/1.0.4: Downloaded package revision d76553f653b5b8bdf7b424d83820fea4 eigen/3.4.90-unstable+git.2025.08.15: Retrieving package da39a3ee5e6b4b0d3255bfef95601890afd80709 from remote 'conancenter' eigen/3.4.90-unstable+git.2025.08.15: Package installed da39a3ee5e6b4b0d3255bfef95601890afd80709 eigen/3.4.90-unstable+git.2025.08.15: Downloaded package revision e5ac635f9d0ddbf15482022ca1b3af33 fast_float/8.0.2: Retrieving package da39a3ee5e6b4b0d3255bfef95601890afd80709 from remote 'conancenter' fast_float/8.0.2: Package installed da39a3ee5e6b4b0d3255bfef95601890afd80709 fast_float/8.0.2: Downloaded package revision 71fc9357d5e2977298ff6419eed246d0 fmt/11.2.0: Retrieving package da39a3ee5e6b4b0d3255bfef95601890afd80709 from remote 'conancenter' fmt/11.2.0: Package installed da39a3ee5e6b4b0d3255bfef95601890afd80709 fmt/11.2.0: Downloaded package revision 2d083f45b55c6afb8ec50fb67dd3c16e parallel-hashmap/2.0.0: Retrieving package da39a3ee5e6b4b0d3255bfef95601890afd80709 from remote 'conancenter' parallel-hashmap/2.0.0: Package installed da39a3ee5e6b4b0d3255bfef95601890afd80709 parallel-hashmap/2.0.0: Downloaded package revision 4e55822c19c91463e20e418d07bb83c0 readerwriterqueue/1.0.6: Retrieving package da39a3ee5e6b4b0d3255bfef95601890afd80709 from remote 'conancenter' readerwriterqueue/1.0.6: Package installed da39a3ee5e6b4b0d3255bfef95601890afd80709 readerwriterqueue/1.0.6: Downloaded package revision ecdfc46fa6d77a9ac39568d286082d22 span-lite/0.11.0: Retrieving package da39a3ee5e6b4b0d3255bfef95601890afd80709 from remote 'conancenter' span-lite/0.11.0: Package installed da39a3ee5e6b4b0d3255bfef95601890afd80709 span-lite/0.11.0: Downloaded package revision 4688663223fa1898bdb770089ef588f0 xsimd/13.0.0: Retrieving package da39a3ee5e6b4b0d3255bfef95601890afd80709 from remote 'conancenter' xsimd/13.0.0: Package installed da39a3ee5e6b4b0d3255bfef95601890afd80709 xsimd/13.0.0: Downloaded package revision 06eff08e8fe56b1741f512fb95cc3f8c spdlog/1.15.3: Retrieving package da39a3ee5e6b4b0d3255bfef95601890afd80709 from remote 'conancenter' spdlog/1.15.3: Package installed da39a3ee5e6b4b0d3255bfef95601890afd80709 spdlog/1.15.3: Downloaded package revision cd9a0d7c5d05bf77172be45346efa8c3 highfive/2.10.0: Retrieving package da39a3ee5e6b4b0d3255bfef95601890afd80709 from remote 'conancenter' highfive/2.10.0: Package installed da39a3ee5e6b4b0d3255bfef95601890afd80709 highfive/2.10.0: Downloaded package revision 858d2e0aff49c826f1f2da54c7bd5435 libdeflate/1.23: Calling source() in /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/libdec6f8694fcf8a4/s/src libdeflate/1.23: Uncompressing v1.23.tar.gz to . -------- Installing package libdeflate/1.23 (8 of 21) -------- libdeflate/1.23: Building from source libdeflate/1.23: Package libdeflate/1.23:035983102d94f5d9d7256017a5fd89651d1294c3 libdeflate/1.23: settings: os=Linux arch=x86_64 compiler=clang compiler.version=19 build_type=Release libdeflate/1.23: options: fPIC=True shared=False libdeflate/1.23: Copying sources to build folder libdeflate/1.23: Building your package in /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/b libdeflate/1.23: Calling generate() libdeflate/1.23: Generators folder: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/b/build/Release/generators libdeflate/1.23: CMakeToolchain generated: conan_toolchain.cmake libdeflate/1.23: CMakeToolchain generated: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/b/build/Release/generators/CMakePresets.json libdeflate/1.23: CMakeToolchain generated: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/b/src/CMakeUserPresets.json libdeflate/1.23: Generating aggregated env files libdeflate/1.23: Generated aggregated env files: ['conanbuild.sh', 'conanrun.sh'] libdeflate/1.23: Calling build() libdeflate/1.23: Running CMake.configure() libdeflate/1.23: RUN: cmake -G "Ninja" -DCMAKE_TOOLCHAIN_FILE="generators/conan_toolchain.cmake" -DCMAKE_INSTALL_PREFIX="/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/p" -DCMAKE_POLICY_DEFAULT_CMP0091="NEW" -DCMAKE_BUILD_TYPE="Release" "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/b/src" -- Using Conan toolchain: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/b/build/Release/generators/conan_toolchain.cmake -- Conan toolchain: Setting CMAKE_POSITION_INDEPENDENT_CODE=ON (options.fPIC) -- Conan toolchain: Defining architecture flag: -m64 -- Conan toolchain: Setting BUILD_SHARED_LIBS = OFF -- The C compiler identification is Clang 19.1.7 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/clang-19 - skipped -- Detecting C compile features -- Detecting C compile features - done -- Performing Test HAVE_WDECLARATION_AFTER_STATEMENT -- Performing Test HAVE_WDECLARATION_AFTER_STATEMENT - Success -- Performing Test HAVE_WIMPLICIT_FALLTHROUGH -- Performing Test HAVE_WIMPLICIT_FALLTHROUGH - Success -- Performing Test HAVE_WMISSING_FIELD_INITIALIZERS -- Performing Test HAVE_WMISSING_FIELD_INITIALIZERS - Success -- Performing Test HAVE_WMISSING_PROTOTYPES -- Performing Test HAVE_WMISSING_PROTOTYPES - Success -- Performing Test HAVE_WPEDANTIC -- Performing Test HAVE_WPEDANTIC - Success -- Performing Test HAVE_WSHADOW -- Performing Test HAVE_WSHADOW - Success -- Performing Test HAVE_WSTRICT_PROTOTYPES -- Performing Test HAVE_WSTRICT_PROTOTYPES - Success -- Performing Test HAVE_WUNDEF -- Performing Test HAVE_WUNDEF - Success -- Performing Test HAVE_WVLA -- Performing Test HAVE_WVLA - Success -- Configuring done (1.6s) -- Generating done (0.0s) -- Build files have been written to: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/b/build/Release libdeflate/1.23: Running CMake.build() libdeflate/1.23: RUN: cmake --build "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/b/build/Release" -- -j32 [1/12] Building C object CMakeFiles/libdeflate_static.dir/lib/arm/cpu_features.c.o [2/12] Building C object CMakeFiles/libdeflate_static.dir/lib/utils.c.o [3/12] Building C object CMakeFiles/libdeflate_static.dir/lib/gzip_compress.c.o [4/12] Building C object CMakeFiles/libdeflate_static.dir/lib/zlib_compress.c.o [5/12] Building C object CMakeFiles/libdeflate_static.dir/lib/zlib_decompress.c.o [6/12] Building C object CMakeFiles/libdeflate_static.dir/lib/gzip_decompress.c.o [7/12] Building C object CMakeFiles/libdeflate_static.dir/lib/x86/cpu_features.c.o [8/12] Building C object CMakeFiles/libdeflate_static.dir/lib/adler32.c.o [9/12] Building C object CMakeFiles/libdeflate_static.dir/lib/crc32.c.o [10/12] Building C object CMakeFiles/libdeflate_static.dir/lib/deflate_decompress.c.o [11/12] Building C object CMakeFiles/libdeflate_static.dir/lib/deflate_compress.c.o [12/12] Linking C static library libdeflate.a libdeflate/1.23: Package '035983102d94f5d9d7256017a5fd89651d1294c3' built libdeflate/1.23: Build folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/b/build/Release libdeflate/1.23: Generating the package libdeflate/1.23: Packaging in folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/p libdeflate/1.23: Calling package() libdeflate/1.23: Running CMake.install() libdeflate/1.23: RUN: cmake --install "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/b/build/Release" --prefix "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/p" -- Install configuration: "Release" -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/p/lib/libdeflate.a -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/p/include/libdeflate.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/p/lib/pkgconfig/libdeflate.pc -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/p/lib/cmake/libdeflate/libdeflate-targets.cmake -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/p/lib/cmake/libdeflate/libdeflate-targets-release.cmake -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/p/lib/cmake/libdeflate/libdeflate-config.cmake -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/p/lib/cmake/libdeflate/libdeflate-config-version.cmake libdeflate/1.23: package(): Packaged 1 '.h' file: libdeflate.h libdeflate/1.23: package(): Packaged 1 file: COPYING libdeflate/1.23: package(): Packaged 1 '.a' file: libdeflate.a libdeflate/1.23: Created package revision 4fe891701b9b99e9f7b1fafba93a1dcc libdeflate/1.23: Package '035983102d94f5d9d7256017a5fd89651d1294c3' created libdeflate/1.23: Full package reference: libdeflate/1.23#4994bea7cf7e93789da161fac8e26a53:035983102d94f5d9d7256017a5fd89651d1294c3#4fe891701b9b99e9f7b1fafba93a1dcc libdeflate/1.23: Package folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/p re2/20230301: Calling source() in /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/re21ed21f94112fb/s/src re2/20230301: Uncompressing 2023-03-01.tar.gz to . -------- Installing package re2/20230301 (10 of 21) -------- re2/20230301: Building from source re2/20230301: Package re2/20230301:dc5068ba5fe1b6dbc8bed0d8e329d7004b0a76d9 re2/20230301: settings: os=Linux arch=x86_64 compiler=clang compiler.cppstd=17 compiler.libcxx=libstdc++11 compiler.version=19 build_type=Release re2/20230301: options: fPIC=True shared=False with_icu=False re2/20230301: Copying sources to build folder re2/20230301: Building your package in /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b re2/20230301: Calling generate() re2/20230301: Generators folder: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/build/Release/generators re2/20230301: CMakeToolchain generated: conan_toolchain.cmake re2/20230301: CMakeToolchain generated: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/build/Release/generators/CMakePresets.json re2/20230301: CMakeToolchain generated: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/CMakeUserPresets.json re2/20230301: Generating aggregated env files re2/20230301: Generated aggregated env files: ['conanbuild.sh', 'conanrun.sh'] re2/20230301: Calling build() re2/20230301: Running CMake.configure() re2/20230301: RUN: cmake -G "Ninja" -DCMAKE_TOOLCHAIN_FILE="generators/conan_toolchain.cmake" -DCMAKE_INSTALL_PREFIX="/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p" -DCMAKE_POLICY_DEFAULT_CMP0091="NEW" -DCMAKE_BUILD_TYPE="Release" "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src" -- Using Conan toolchain: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/build/Release/generators/conan_toolchain.cmake -- Conan toolchain: Setting CMAKE_POSITION_INDEPENDENT_CODE=ON (options.fPIC) -- Conan toolchain: Defining architecture flag: -m64 -- Conan toolchain: Defining libcxx as C++ flags: -stdlib=libstdc++ -- Conan toolchain: C++ Standard 17 with extensions OFF -- Conan toolchain: Setting BUILD_SHARED_LIBS = OFF -- The CXX compiler identification is Clang 19.1.7 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/clang++-19 - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Configuring done (0.8s) -- Generating done (0.0s) -- Build files have been written to: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/build/Release re2/20230301: Running CMake.build() re2/20230301: RUN: cmake --build "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/build/Release" -- -j32 [1/24] Building CXX object CMakeFiles/re2.dir/re2/perl_groups.cc.o [2/24] Building CXX object CMakeFiles/re2.dir/re2/unicode_casefold.cc.o [3/24] Building CXX object CMakeFiles/re2.dir/util/rune.cc.o [4/24] Building CXX object CMakeFiles/re2.dir/re2/unicode_groups.cc.o [5/24] Building CXX object CMakeFiles/re2.dir/re2/bitmap256.cc.o [6/24] Building CXX object CMakeFiles/re2.dir/util/strutil.cc.o [7/24] Building CXX object CMakeFiles/re2.dir/re2/stringpiece.cc.o [8/24] Building CXX object CMakeFiles/re2.dir/re2/mimics_pcre.cc.o In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/mimics_pcre.cc:27: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 586 | struct { // CharClass | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 586 | struct { // CharClass | ^ In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/mimics_pcre.cc:28: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/walker-inl.h:140:39: warning: ISO C++ requires the name after '::~' to be found in the same scope as the name before '::~' [-Wdtor-name] 140 | template Regexp::Walker::~Walker() { | ~~~~~~~~~~~~~~~~~^~ | ::Walker 9 warnings generated. [9/24] Building CXX object CMakeFiles/re2.dir/re2/filtered_re2.cc.o [10/24] Building CXX object CMakeFiles/re2.dir/re2/simplify.cc.o In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/simplify.cc:15: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 586 | struct { // CharClass | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 586 | struct { // CharClass | ^ In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/simplify.cc:16: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/walker-inl.h:140:39: warning: ISO C++ requires the name after '::~' to be found in the same scope as the name before '::~' [-Wdtor-name] 140 | template Regexp::Walker::~Walker() { | ~~~~~~~~~~~~~~~~~^~ | ::Walker 9 warnings generated. [11/24] Building CXX object CMakeFiles/re2.dir/re2/bitstate.cc.o In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/bitstate.cc:28: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:148:7: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 148 | struct { // opcode == kInstByteRange | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:148:7: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:426:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 426 | struct { | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:426:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/bitstate.cc:29: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 586 | struct { // CharClass | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 586 | struct { // CharClass | ^ 12 warnings generated. [12/24] Building CXX object CMakeFiles/re2.dir/re2/tostring.cc.o In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/tostring.cc:15: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 586 | struct { // CharClass | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 586 | struct { // CharClass | ^ In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/tostring.cc:16: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/walker-inl.h:140:39: warning: ISO C++ requires the name after '::~' to be found in the same scope as the name before '::~' [-Wdtor-name] 140 | template Regexp::Walker::~Walker() { | ~~~~~~~~~~~~~~~~~^~ | ::Walker 9 warnings generated. [13/24] Building CXX object CMakeFiles/re2.dir/re2/onepass.cc.o In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/onepass.cc:65: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:148:7: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 148 | struct { // opcode == kInstByteRange | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:148:7: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:426:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 426 | struct { | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:426:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/onepass.cc:148:12: warning: flexible array members are a C99 feature [-Wc99-extensions] 148 | uint32_t action[]; | ^ 5 warnings generated. [14/24] Building CXX object CMakeFiles/re2.dir/re2/prefilter.cc.o In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prefilter.cc:19: In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/walker-inl.h:19: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 586 | struct { // CharClass | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 586 | struct { // CharClass | ^ In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prefilter.cc:19: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/walker-inl.h:140:39: warning: ISO C++ requires the name after '::~' to be found in the same scope as the name before '::~' [-Wdtor-name] 140 | template Regexp::Walker::~Walker() { | ~~~~~~~~~~~~~~~~~^~ | ::Walker 9 warnings generated. [15/24] Building CXX object CMakeFiles/re2.dir/re2/set.cc.o In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/set.cc:15: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:148:7: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 148 | struct { // opcode == kInstByteRange | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:148:7: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:426:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 426 | struct { | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:426:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/set.cc:17: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 586 | struct { // CharClass | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 586 | struct { // CharClass | ^ 12 warnings generated. [16/24] Building CXX object CMakeFiles/re2.dir/re2/nfa.cc.o In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/nfa.cc:38: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:148:7: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 148 | struct { // opcode == kInstByteRange | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:148:7: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:426:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 426 | struct { | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:426:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/nfa.cc:39: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 586 | struct { // CharClass | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 586 | struct { // CharClass | ^ 12 warnings generated. [17/24] Building CXX object CMakeFiles/re2.dir/re2/re2.cc.o In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/re2.cc:33: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:148:7: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 148 | struct { // opcode == kInstByteRange | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:148:7: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:426:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 426 | struct { | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:426:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/re2.cc:34: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 586 | struct { // CharClass | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 586 | struct { // CharClass | ^ 12 warnings generated. [18/24] Building CXX object CMakeFiles/re2.dir/re2/parse.cc.o In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/parse.cc:33: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 586 | struct { // CharClass | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 586 | struct { // CharClass | ^ In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/parse.cc:37: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/walker-inl.h:140:39: warning: ISO C++ requires the name after '::~' to be found in the same scope as the name before '::~' [-Wdtor-name] 140 | template Regexp::Walker::~Walker() { | ~~~~~~~~~~~~~~~~~^~ | ::Walker 9 warnings generated. [19/24] Building CXX object CMakeFiles/re2.dir/re2/regexp.cc.o In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.cc:8: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 586 | struct { // CharClass | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 586 | struct { // CharClass | ^ In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.cc:25: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/walker-inl.h:140:39: warning: ISO C++ requires the name after '::~' to be found in the same scope as the name before '::~' [-Wdtor-name] 140 | template Regexp::Walker::~Walker() { | ~~~~~~~~~~~~~~~~~^~ | ::Walker 9 warnings generated. [20/24] Building CXX object CMakeFiles/re2.dir/re2/compile.cc.o In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/compile.cc:19: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:148:7: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 148 | struct { // opcode == kInstByteRange | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:148:7: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:426:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 426 | struct { | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:426:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/compile.cc:21: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 586 | struct { // CharClass | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:574:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 574 | struct { // Repeat | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:578:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 578 | struct { // Capture | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:582:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 582 | struct { // LiteralString | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/regexp.h:586:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 586 | struct { // CharClass | ^ In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/compile.cc:22: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/walker-inl.h:140:39: warning: ISO C++ requires the name after '::~' to be found in the same scope as the name before '::~' [-Wdtor-name] 140 | template Regexp::Walker::~Walker() { | ~~~~~~~~~~~~~~~~~^~ | ::Walker 13 warnings generated. [21/24] Building CXX object CMakeFiles/re2.dir/re2/prog.cc.o In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.cc:8: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:148:7: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 148 | struct { // opcode == kInstByteRange | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:148:7: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:426:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 426 | struct { | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:426:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] 4 warnings generated. [22/24] Building CXX object CMakeFiles/re2.dir/re2/prefilter_tree.cc.o [23/24] Building CXX object CMakeFiles/re2.dir/re2/dfa.cc.o In file included from /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/dfa.cc:44: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:148:7: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 148 | struct { // opcode == kInstByteRange | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:148:7: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:426:5: warning: anonymous structs are a GNU extension [-Wgnu-anonymous-struct] 426 | struct { | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/prog.h:426:5: warning: anonymous types declared in an anonymous union are an extension [-Wnested-anon-types] /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/src/re2/dfa.cc:128:25: warning: flexible array members are a C99 feature [-Wc99-extensions] 128 | std::atomic next_[]; // Outgoing arrows from State, | ^ 5 warnings generated. [24/24] Linking CXX static library libre2.a re2/20230301: Package 'dc5068ba5fe1b6dbc8bed0d8e329d7004b0a76d9' built re2/20230301: Build folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/build/Release re2/20230301: Generating the package re2/20230301: Packaging in folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p re2/20230301: Calling package() re2/20230301: Running CMake.install() re2/20230301: RUN: cmake --install "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/b/build/Release" --prefix "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p" -- Install configuration: "Release" -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p/lib/libre2.a -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p/include/re2/filtered_re2.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p/include/re2/re2.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p/include/re2/set.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p/include/re2/stringpiece.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p/lib/cmake/re2/re2Targets.cmake -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p/lib/cmake/re2/re2Targets-release.cmake -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p/lib/cmake/re2/re2Config.cmake -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p/lib/cmake/re2/re2ConfigVersion.cmake -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p/lib/pkgconfig/re2.pc re2/20230301: package(): Packaged 4 '.h' files: stringpiece.h, set.h, filtered_re2.h, re2.h re2/20230301: package(): Packaged 1 file: LICENSE re2/20230301: package(): Packaged 1 '.a' file: libre2.a re2/20230301: Created package revision fbbfa32978ad14af0c9e95a905296472 re2/20230301: Package 'dc5068ba5fe1b6dbc8bed0d8e329d7004b0a76d9' created re2/20230301: Full package reference: re2/20230301#dfd6e2bf050eb90ddd8729cfb4c844a4:dc5068ba5fe1b6dbc8bed0d8e329d7004b0a76d9#fbbfa32978ad14af0c9e95a905296472 re2/20230301: Package folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p zlib/1.3.1: Sources downloaded from 'conancenter' zlib/1.3.1: Calling source() in /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/zlib204752602052d/s/src zlib/1.3.1: Uncompressing zlib-1.3.1.tar.gz to /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/zlib204752602052d/s/src -------- Installing package zlib/1.3.1 (14 of 21) -------- zlib/1.3.1: Building from source zlib/1.3.1: Package zlib/1.3.1:035983102d94f5d9d7256017a5fd89651d1294c3 zlib/1.3.1: settings: os=Linux arch=x86_64 compiler=clang compiler.version=19 build_type=Release zlib/1.3.1: options: fPIC=True shared=False zlib/1.3.1: Copying sources to build folder zlib/1.3.1: Building your package in /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/b zlib/1.3.1: Calling generate() zlib/1.3.1: Generators folder: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/b/build/Release/generators zlib/1.3.1: CMakeToolchain generated: conan_toolchain.cmake zlib/1.3.1: CMakeToolchain generated: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/b/build/Release/generators/CMakePresets.json zlib/1.3.1: CMakeToolchain generated: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/b/src/CMakeUserPresets.json zlib/1.3.1: Generating aggregated env files zlib/1.3.1: Generated aggregated env files: ['conanbuild.sh', 'conanrun.sh'] zlib/1.3.1: Calling build() zlib/1.3.1: Apply patch (conan): separate static/shared builds, disable debug suffix zlib/1.3.1: Running CMake.configure() zlib/1.3.1: RUN: cmake -G "Ninja" -DCMAKE_TOOLCHAIN_FILE="generators/conan_toolchain.cmake" -DCMAKE_INSTALL_PREFIX="/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/p" -DCMAKE_POLICY_DEFAULT_CMP0091="NEW" -DCMAKE_BUILD_TYPE="Release" "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/b/src" -- Using Conan toolchain: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/b/build/Release/generators/conan_toolchain.cmake -- Conan toolchain: Setting CMAKE_POSITION_INDEPENDENT_CODE=ON (options.fPIC) -- Conan toolchain: Defining architecture flag: -m64 -- Conan toolchain: Setting BUILD_SHARED_LIBS = OFF -- The C compiler identification is Clang 19.1.7 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/clang-19 - skipped -- Detecting C compile features -- Detecting C compile features - done -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of off64_t -- Check size of off64_t - done -- Looking for fseeko -- Looking for fseeko - found -- Looking for unistd.h -- Looking for unistd.h - found -- Renaming -- /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/b/src/zconf.h -- to 'zconf.h.included' because this file is included with zlib -- but CMake generates it automatically in the build directory. -- Configuring done (1.2s) -- Generating done (0.0s) -- Build files have been written to: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/b/build/Release zlib/1.3.1: Running CMake.build() zlib/1.3.1: RUN: cmake --build "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/b/build/Release" -- -j32 [1/16] Building C object CMakeFiles/zlib.dir/gzclose.c.o [2/16] Building C object CMakeFiles/zlib.dir/uncompr.c.o [3/16] Building C object CMakeFiles/zlib.dir/compress.c.o [4/16] Building C object CMakeFiles/zlib.dir/zutil.c.o [5/16] Building C object CMakeFiles/zlib.dir/adler32.c.o [6/16] Building C object CMakeFiles/zlib.dir/inftrees.c.o [7/16] Building C object CMakeFiles/zlib.dir/gzlib.c.o [8/16] Building C object CMakeFiles/zlib.dir/gzwrite.c.o [9/16] Building C object CMakeFiles/zlib.dir/inffast.c.o [10/16] Building C object CMakeFiles/zlib.dir/gzread.c.o [11/16] Building C object CMakeFiles/zlib.dir/crc32.c.o [12/16] Building C object CMakeFiles/zlib.dir/infback.c.o [13/16] Building C object CMakeFiles/zlib.dir/trees.c.o [14/16] Building C object CMakeFiles/zlib.dir/deflate.c.o [15/16] Building C object CMakeFiles/zlib.dir/inflate.c.o [16/16] Linking C static library libz.a zlib/1.3.1: Package '035983102d94f5d9d7256017a5fd89651d1294c3' built zlib/1.3.1: Build folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/b/build/Release zlib/1.3.1: Generating the package zlib/1.3.1: Packaging in folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/p zlib/1.3.1: Calling package() zlib/1.3.1: Running CMake.install() zlib/1.3.1: RUN: cmake --install "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/b/build/Release" --prefix "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/p" -- Install configuration: "Release" -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/p/lib/libz.a -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/p/include/zconf.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/p/include/zlib.h zlib/1.3.1: package(): Packaged 2 '.h' files: zconf.h, zlib.h zlib/1.3.1: package(): Packaged 1 file: LICENSE zlib/1.3.1: package(): Packaged 1 '.a' file: libz.a zlib/1.3.1: Created package revision 3059c38127b415abfcfb26808a79bcbe zlib/1.3.1: Package '035983102d94f5d9d7256017a5fd89651d1294c3' created zlib/1.3.1: Full package reference: zlib/1.3.1#b8bc2603263cf7eccbd6e17e66b0ed76:035983102d94f5d9d7256017a5fd89651d1294c3#3059c38127b415abfcfb26808a79bcbe zlib/1.3.1: Package folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/p zstd/1.5.7: Sources downloaded from 'conancenter' zstd/1.5.7: Calling source() in /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/zstdeed99db05b3ea/s/src zstd/1.5.7: Uncompressing zstd-1.5.7.tar.gz to . -------- Installing package zstd/1.5.7 (15 of 21) -------- zstd/1.5.7: Building from source zstd/1.5.7: Package zstd/1.5.7:9308e58c41ad3f278ab5d5003e836d4248b52a61 zstd/1.5.7: settings: os=Linux arch=x86_64 compiler=clang compiler.version=19 build_type=Release zstd/1.5.7: options: build_programs=False fPIC=True shared=False threading=True zstd/1.5.7: Copying sources to build folder zstd/1.5.7: Building your package in /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b zstd/1.5.7: Calling generate() zstd/1.5.7: Generators folder: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/build/Release/generators zstd/1.5.7: CMakeToolchain generated: conan_toolchain.cmake zstd/1.5.7: CMakeToolchain generated: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/build/Release/generators/CMakePresets.json zstd/1.5.7: Generating aggregated env files zstd/1.5.7: Generated aggregated env files: ['conanbuild.sh', 'conanrun.sh'] zstd/1.5.7: Calling build() zstd/1.5.7: apply_conandata_patches(): No patches defined in conandata zstd/1.5.7: Running CMake.configure() zstd/1.5.7: RUN: cmake -G "Ninja" -DCMAKE_TOOLCHAIN_FILE="generators/conan_toolchain.cmake" -DCMAKE_INSTALL_PREFIX="/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/p" -DCMAKE_POLICY_DEFAULT_CMP0091="NEW" -DCMAKE_BUILD_TYPE="Release" "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/build/cmake" -- Using Conan toolchain: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/build/Release/generators/conan_toolchain.cmake -- Conan toolchain: Setting CMAKE_POSITION_INDEPENDENT_CODE=ON (options.fPIC) -- Conan toolchain: Defining architecture flag: -m64 -- Conan toolchain: Setting BUILD_SHARED_LIBS = OFF -- The C compiler identification is Clang 19.1.7 -- The ASM compiler identification is Clang with GNU-like command-line -- Found assembler: /usr/bin/clang-19 -- The CXX compiler identification is Clang 19.1.7 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/clang-19 - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/clang++-19 - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- ZSTD VERSION: 1.5.7 -- Performing Test C_FLAG_WALL -- Performing Test C_FLAG_WALL - Success -- Performing Test CXX_FLAG_WALL -- Performing Test CXX_FLAG_WALL - Success -- Performing Test C_FLAG_WEXTRA -- Performing Test C_FLAG_WEXTRA - Success -- Performing Test CXX_FLAG_WEXTRA -- Performing Test CXX_FLAG_WEXTRA - Success -- Performing Test C_FLAG_WUNDEF -- Performing Test C_FLAG_WUNDEF - Success -- Performing Test CXX_FLAG_WUNDEF -- Performing Test CXX_FLAG_WUNDEF - Success -- Performing Test C_FLAG_WSHADOW -- Performing Test C_FLAG_WSHADOW - Success -- Performing Test CXX_FLAG_WSHADOW -- Performing Test CXX_FLAG_WSHADOW - Success -- Performing Test C_FLAG_WCAST_ALIGN -- Performing Test C_FLAG_WCAST_ALIGN - Success -- Performing Test CXX_FLAG_WCAST_ALIGN -- Performing Test CXX_FLAG_WCAST_ALIGN - Success -- Performing Test C_FLAG_WCAST_QUAL -- Performing Test C_FLAG_WCAST_QUAL - Success -- Performing Test CXX_FLAG_WCAST_QUAL -- Performing Test CXX_FLAG_WCAST_QUAL - Success -- Performing Test C_FLAG_WSTRICT_PROTOTYPES -- Performing Test C_FLAG_WSTRICT_PROTOTYPES - Success -- Performing Test LD_FLAG_WL_Z_NOEXECSTACK -- Performing Test LD_FLAG_WL_Z_NOEXECSTACK - Success -- Performing Test C_FLAG_QUNUSED_ARGUMENTS -- Performing Test C_FLAG_QUNUSED_ARGUMENTS - Success -- Performing Test CXX_FLAG_QUNUSED_ARGUMENTS -- Performing Test CXX_FLAG_QUNUSED_ARGUMENTS - Success -- Performing Test C_FLAG_WA_NOEXECSTACK -- Performing Test C_FLAG_WA_NOEXECSTACK - Success -- Performing Test CXX_FLAG_WA_NOEXECSTACK -- Performing Test CXX_FLAG_WA_NOEXECSTACK - Success -- CMAKE_INSTALL_PREFIX: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/p -- CMAKE_INSTALL_LIBDIR: lib -- ZSTD_LEGACY_SUPPORT defined! -- ZSTD_MULTITHREAD_SUPPORT is enabled -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Configuring done (3.9s) -- Generating done (0.0s) -- Build files have been written to: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/build/Release zstd/1.5.7: Running CMake.build() zstd/1.5.7: RUN: cmake --build "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/build/Release" -- -j32 [1/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/common/debug.c.o [2/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/common/threading.c.o [3/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/common/error_private.c.o [4/39] Building ASM object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/decompress/huf_decompress_amd64.S.o [5/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/common/zstd_common.c.o [6/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/common/pool.c.o [7/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/decompress/zstd_ddict.c.o [8/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/compress/zstd_preSplit.c.o [9/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/compress/hist.c.o [10/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/compress/zstd_compress_literals.c.o [11/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/common/xxhash.c.o [12/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/common/entropy_common.c.o [13/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/compress/fse_compress.c.o [14/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/dictBuilder/fastcover.c.o [15/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/compress/zstd_compress_sequences.c.o [16/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/compress/zstd_compress_superblock.c.o [17/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/compress/zstd_ldm.c.o [18/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/common/fse_decompress.c.o [19/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/dictBuilder/cover.c.o [20/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/compress/zstdmt_compress.c.o [21/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/decompress/zstd_decompress.c.o [22/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/dictBuilder/zdict.c.o [23/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/legacy/zstd_v01.c.o [24/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/legacy/zstd_v02.c.o [25/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/legacy/zstd_v04.c.o [26/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/legacy/zstd_v03.c.o [27/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/compress/huf_compress.c.o [28/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/dictBuilder/divsufsort.c.o [29/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/legacy/zstd_v05.c.o [30/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/legacy/zstd_v06.c.o [31/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/legacy/zstd_v07.c.o [32/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/decompress/huf_decompress.c.o [33/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/compress/zstd_opt.c.o [34/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/compress/zstd_compress.c.o [35/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/decompress/zstd_decompress_block.c.o [36/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/compress/zstd_double_fast.c.o [37/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/compress/zstd_fast.c.o [38/39] Building C object lib/CMakeFiles/libzstd_static.dir/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/src/lib/compress/zstd_lazy.c.o [39/39] Linking C static library lib/libzstd.a zstd/1.5.7: Package '9308e58c41ad3f278ab5d5003e836d4248b52a61' built zstd/1.5.7: Build folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/build/Release zstd/1.5.7: Generating the package zstd/1.5.7: Packaging in folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/p zstd/1.5.7: Calling package() zstd/1.5.7: Running CMake.install() zstd/1.5.7: RUN: cmake --install "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/b/build/Release" --prefix "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/p" -- Install configuration: "Release" -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/p/lib/cmake/zstd/zstdTargets.cmake -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/p/lib/cmake/zstd/zstdTargets-release.cmake -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/p/lib/cmake/zstd/zstdConfig.cmake -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/p/lib/cmake/zstd/zstdConfigVersion.cmake -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/p/lib/pkgconfig/libzstd.pc -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/p/include/zdict.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/p/include/zstd.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/p/include/zstd_errors.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/p/lib/libzstd.a zstd/1.5.7: package(): Packaged 3 '.h' files: zstd.h, zstd_errors.h, zdict.h zstd/1.5.7: package(): Packaged 1 file: LICENSE zstd/1.5.7: package(): Packaged 1 '.a' file: libzstd.a zstd/1.5.7: Created package revision 6ab907975b6fda1c2fae07870dc4de94 zstd/1.5.7: Package '9308e58c41ad3f278ab5d5003e836d4248b52a61' created zstd/1.5.7: Full package reference: zstd/1.5.7#fde461c0d847a22f16d3066774f61b11:9308e58c41ad3f278ab5d5003e836d4248b52a61#6ab907975b6fda1c2fae07870dc4de94 zstd/1.5.7: Package folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/p hdf5/1.14.6: Sources downloaded from 'conancenter' hdf5/1.14.6: Calling source() in /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/hdf51a2c79ed0e701/s/src hdf5/1.14.6: Downloading 39.2MB hdf5_1.14.6.tar.gz hdf5/1.14.6: Uncompressing hdf5_1.14.6.tar.gz to . -------- Installing package hdf5/1.14.6 (16 of 21) -------- hdf5/1.14.6: Building from source hdf5/1.14.6: Package hdf5/1.14.6:459c23bd7d939071d1d944c503840db7579be036 hdf5/1.14.6: settings: os=Linux arch=x86_64 compiler=clang compiler.version=19 build_type=Release hdf5/1.14.6: options: enable_cxx=False enable_unsupported=False fPIC=True hl=False parallel=False shared=False szip_support=None threadsafe=False with_zlib=True with_zlibng=False hdf5/1.14.6: requires: zlib/1.3.Z hdf5/1.14.6: Copying sources to build folder hdf5/1.14.6: Building your package in /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/b hdf5/1.14.6: Calling generate() hdf5/1.14.6: Generators folder: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/b/build/Release/generators hdf5/1.14.6: CMakeToolchain generated: conan_toolchain.cmake hdf5/1.14.6: CMakeToolchain generated: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/b/build/Release/generators/CMakePresets.json hdf5/1.14.6: CMakeToolchain generated: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/b/src/CMakeUserPresets.json hdf5/1.14.6: Generating aggregated env files hdf5/1.14.6: Generated aggregated env files: ['conanbuild.sh', 'conanrun.sh'] hdf5/1.14.6: Calling build() hdf5/1.14.6: apply_conandata_patches(): No patches defined in conandata hdf5/1.14.6: Running CMake.configure() hdf5/1.14.6: RUN: cmake -G "Ninja" -DCMAKE_TOOLCHAIN_FILE="generators/conan_toolchain.cmake" -DCMAKE_INSTALL_PREFIX="/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p" -DCMAKE_POLICY_DEFAULT_CMP0091="NEW" -DCMAKE_BUILD_TYPE="Release" "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/b/src" -- Using Conan toolchain: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/b/build/Release/generators/conan_toolchain.cmake -- Conan toolchain: Setting CMAKE_POSITION_INDEPENDENT_CODE=ON (options.fPIC) -- Conan toolchain: Defining architecture flag: -m64 -- Conan toolchain: Setting BUILD_SHARED_LIBS = OFF -- The C compiler identification is Clang 19.1.7 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/clang-19 - skipped -- Detecting C compile features -- Detecting C compile features - done -- Final: share -- Looking for include file sys/file.h -- Looking for include file sys/file.h - found -- Looking for include files sys/file.h, sys/ioctl.h -- Looking for include files sys/file.h, sys/ioctl.h - found -- Looking for 3 include files sys/file.h, ..., sys/resource.h -- Looking for 3 include files sys/file.h, ..., sys/resource.h - found -- Looking for 4 include files sys/file.h, ..., sys/socket.h -- Looking for 4 include files sys/file.h, ..., sys/socket.h - found -- Looking for 5 include files sys/file.h, ..., sys/stat.h -- Looking for 5 include files sys/file.h, ..., sys/stat.h - found -- Looking for 6 include files sys/file.h, ..., sys/time.h -- Looking for 6 include files sys/file.h, ..., sys/time.h - found -- Looking for 7 include files sys/file.h, ..., sys/types.h -- Looking for 7 include files sys/file.h, ..., sys/types.h - found -- Looking for 8 include files sys/file.h, ..., features.h -- Looking for 8 include files sys/file.h, ..., features.h - found -- Looking for 9 include files sys/file.h, ..., dirent.h -- Looking for 9 include files sys/file.h, ..., dirent.h - found -- Looking for 10 include files sys/file.h, ..., unistd.h -- Looking for 10 include files sys/file.h, ..., unistd.h - found -- Looking for 11 include files sys/file.h, ..., pwd.h -- Looking for 11 include files sys/file.h, ..., pwd.h - found -- Looking for 12 include files sys/file.h, ..., pthread.h -- Looking for 12 include files sys/file.h, ..., pthread.h - found -- Looking for 13 include files sys/file.h, ..., dlfcn.h -- Looking for 13 include files sys/file.h, ..., dlfcn.h - found -- Looking for 14 include files sys/file.h, ..., netinet/in.h -- Looking for 14 include files sys/file.h, ..., netinet/in.h - found -- Looking for 15 include files sys/file.h, ..., netdb.h -- Looking for 15 include files sys/file.h, ..., netdb.h - found -- Looking for 16 include files sys/file.h, ..., arpa/inet.h -- Looking for 16 include files sys/file.h, ..., arpa/inet.h - found -- Looking for include file quadmath.h -- Looking for include file quadmath.h - not found -- Looking for ceil in m; -- Looking for ceil in m; - found -- Looking for dlopen in dl;m -- Looking for dlopen in dl;m - found -- Looking for WSAStartup in ws2_32;m;dl -- Looking for WSAStartup in ws2_32;m;dl - not found -- Looking for gethostbyname in wsock32;m;dl -- Looking for gethostbyname in wsock32;m;dl - not found -- Looking for gethostname in ucb;m;dl -- Looking for gethostname in ucb;m;dl - not found -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of char -- Check size of char - done -- Check size of short -- Check size of short - done -- Check size of int -- Check size of int - done -- Check size of unsigned -- Check size of unsigned - done -- Check size of long -- Check size of long - done -- Check size of long long -- Check size of long long - done -- Check size of float -- Check size of float - done -- Check size of double -- Check size of double - done -- Check size of long double -- Check size of long double - done -- Check size of int8_t -- Check size of int8_t - done -- Check size of uint8_t -- Check size of uint8_t - done -- Check size of int_least8_t -- Check size of int_least8_t - done -- Check size of uint_least8_t -- Check size of uint_least8_t - done -- Check size of int_fast8_t -- Check size of int_fast8_t - done -- Check size of uint_fast8_t -- Check size of uint_fast8_t - done -- Check size of int16_t -- Check size of int16_t - done -- Check size of uint16_t -- Check size of uint16_t - done -- Check size of int_least16_t -- Check size of int_least16_t - done -- Check size of uint_least16_t -- Check size of uint_least16_t - done -- Check size of int_fast16_t -- Check size of int_fast16_t - done -- Check size of uint_fast16_t -- Check size of uint_fast16_t - done -- Check size of int32_t -- Check size of int32_t - done -- Check size of uint32_t -- Check size of uint32_t - done -- Check size of int_least32_t -- Check size of int_least32_t - done -- Check size of uint_least32_t -- Check size of uint_least32_t - done -- Check size of int_fast32_t -- Check size of int_fast32_t - done -- Check size of uint_fast32_t -- Check size of uint_fast32_t - done -- Check size of int64_t -- Check size of int64_t - done -- Check size of uint64_t -- Check size of uint64_t - done -- Check size of int_least64_t -- Check size of int_least64_t - done -- Check size of uint_least64_t -- Check size of uint_least64_t - done -- Check size of int_fast64_t -- Check size of int_fast64_t - done -- Check size of uint_fast64_t -- Check size of uint_fast64_t - done -- Check size of size_t -- Check size of size_t - done -- Check size of ssize_t -- Check size of ssize_t - done -- Check size of ptrdiff_t -- Check size of ptrdiff_t - done -- Check size of off_t -- Check size of off_t - done -- Check size of time_t -- Check size of time_t - done -- Check size of _Bool -- Check size of _Bool - done -- Looking for CLOCK_MONOTONIC -- Looking for CLOCK_MONOTONIC - not found -- Performing Test H5_HAVE_TM_GMTOFF -- Performing Test H5_HAVE_TM_GMTOFF - Success -- Performing Test H5_HAVE___TM_GMTOFF -- Performing Test H5_HAVE___TM_GMTOFF - Failed -- Performing Test H5_HAVE_STRUCT_TIMEZONE -- Performing Test H5_HAVE_STRUCT_TIMEZONE - Failed -- Looking for gettimeofday -- Looking for gettimeofday - found -- Performing Test H5_HAVE_STAT_ST_BLOCKS -- Performing Test H5_HAVE_STAT_ST_BLOCKS - Success -- Looking for ioctl -- Looking for ioctl - found -- Performing Test H5_HAVE_STRUCT_VIDEOCONFIG -- Performing Test H5_HAVE_STRUCT_VIDEOCONFIG - Failed -- Performing Test H5_HAVE_STRUCT_TEXT_INFO -- Performing Test H5_HAVE_STRUCT_TEXT_INFO - Failed -- Looking for _getvideoconfig -- Looking for _getvideoconfig - not found -- Looking for gettextinfo -- Looking for gettextinfo - not found -- Looking for _scrsize -- Looking for _scrsize - not found -- Looking for GetConsoleScreenBufferInfo -- Looking for GetConsoleScreenBufferInfo - not found -- Looking for TIOCGWINSZ -- Looking for TIOCGWINSZ - found -- Looking for TIOCGETD -- Looking for TIOCGETD - found -- Looking for alarm -- Looking for alarm - found -- Looking for fcntl -- Looking for fcntl - found -- Looking for flock -- Looking for flock - found -- Looking for fork -- Looking for fork - found -- Looking for gethostname -- Looking for gethostname - found -- Looking for getrusage -- Looking for getrusage - found -- Looking for pread -- Looking for pread - found -- Looking for pwrite -- Looking for pwrite - found -- Looking for rand_r -- Looking for rand_r - found -- Looking for random -- Looking for random - found -- Looking for strcasestr -- Looking for strcasestr - found -- Looking for strdup -- Looking for strdup - found -- Looking for symlink -- Looking for symlink - found -- Looking for tmpfile -- Looking for tmpfile - found -- Looking for asprintf -- Looking for asprintf - found -- Looking for vasprintf -- Looking for vasprintf - found -- Looking for waitpid -- Looking for waitpid - found -- Looking for sigsetjmp -- Looking for sigsetjmp - found -- Looking for clock_gettime -- Looking for clock_gettime - found -- Looking for clock_gettime in rt -- Looking for clock_gettime in rt - found -- Looking for clock_gettime in posix4 -- Looking for clock_gettime in posix4 - not found -- Check size of CLOCK_MONOTONIC_COARSE -- Check size of CLOCK_MONOTONIC_COARSE - done -- Checking if _Float16 support is available -- Check size of _Float16 -- Check size of _Float16 - done -- Looking for FLT16_EPSILON -- Looking for FLT16_EPSILON - found -- Looking for FLT16_MIN -- Looking for FLT16_MIN - found -- Looking for FLT16_MAX -- Looking for FLT16_MAX - found -- Looking for FLT16_MIN_10_EXP -- Looking for FLT16_MIN_10_EXP - found -- Looking for FLT16_MAX_10_EXP -- Looking for FLT16_MAX_10_EXP - found -- Looking for FLT16_MANT_DIG -- Looking for FLT16_MANT_DIG - found -- Looking for fabsf16 -- Looking for fabsf16 - not found -- Found Perl: /usr/bin/perl (found version "5.40.1") -- ....All Warnings are enabled -- Conan: Target declared 'ZLIB::ZLIB' -- Found ZLIB: 1.3.1 (found version "1.3.1") -- Configuring done (16.3s) -- Generating done (0.0s) -- Build files have been written to: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/b/build/Release hdf5/1.14.6: Running CMake.build() hdf5/1.14.6: RUN: cmake --build "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/b/build/Release" -- -j32 [1/356] Building C object src/CMakeFiles/hdf5-static.dir/H5build_settings.c.o [2/356] Building C object src/CMakeFiles/hdf5-static.dir/H5mpi.c.o [3/356] Building C object src/CMakeFiles/hdf5-static.dir/H5dbg.c.o [4/356] Building C object src/CMakeFiles/hdf5-static.dir/H5timer.c.o [5/356] Building C object src/CMakeFiles/hdf5-static.dir/H5ACmpio.c.o [6/356] Building C object src/CMakeFiles/hdf5-static.dir/H5ACdbg.c.o [7/356] Building C object src/CMakeFiles/hdf5-static.dir/H5B2stat.c.o [8/356] Building C object src/CMakeFiles/hdf5-static.dir/H5checksum.c.o [9/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Cdbg.c.o [10/356] Building C object src/CMakeFiles/hdf5-static.dir/H5ACproxy_entry.c.o [11/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Atest.c.o [12/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Abtree2.c.o [13/356] Building C object src/CMakeFiles/hdf5-static.dir/H5B2dbg.c.o [14/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Bdbg.c.o [15/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Bcache.c.o [16/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Adeprec.c.o [17/356] Building C object src/CMakeFiles/hdf5-static.dir/H5system.c.o [18/356] Building C object src/CMakeFiles/hdf5-static.dir/H5B2test.c.o [19/356] Building C object src/CMakeFiles/hdf5-static.dir/H5B2hdr.c.o [20/356] Building C object src/CMakeFiles/hdf5-static.dir/H5.c.o [21/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Cepoch.c.o [22/356] Building C object src/CMakeFiles/hdf5-static.dir/H5B2leaf.c.o [23/356] Building C object src/CMakeFiles/hdf5-static.dir/H5B2cache.c.o [24/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Cmpio.c.o [25/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Cprefetched.c.o [26/356] Building C object src/CMakeFiles/hdf5-static.dir/H5B2.c.o [27/356] Building C object src/CMakeFiles/hdf5-static.dir/H5AC.c.o [28/356] Building C object src/CMakeFiles/hdf5-static.dir/H5C.c.o [29/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Ctest.c.o [30/356] Building C object src/CMakeFiles/hdf5-static.dir/H5B2internal.c.o [31/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Clog.c.o [32/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Clog_trace.c.o [33/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Cquery.c.o [34/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Adense.c.o [35/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Clog_json.c.o [36/356] Building C object src/CMakeFiles/hdf5-static.dir/H5B.c.o [37/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Ddbg.c.o [38/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Dcompact.c.o [39/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Aint.c.o [40/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Ddeprec.c.o [41/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Dmpio.c.o [42/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Dbtree.c.o [43/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Cint.c.o [44/356] Building C object src/CMakeFiles/hdf5-static.dir/H5B2int.c.o [45/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Dbtree2.c.o [46/356] Building C object 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Building C object src/CMakeFiles/hdf5-static.dir/H5Otest.c.o [241/356] Building C object src/CMakeFiles/hdf5-static.dir/H5MF.c.o /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/b/src/src/H5MF.c:2078:84: warning: arithmetic between different enumeration types ('H5F_mem_page_t' (aka 'enum H5F_mem_page_t') and 'enum H5F_mem_t') [-Wenum-enum-conversion] 2078 | : ((ptype % H5FD_MEM_NTYPES) + 1)); | ~~~~~ ^ ~~~~~~~~~~~~~~~ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/b/src/src/H5MF.c:2318:50: warning: arithmetic between different enumeration types ('H5F_mem_page_t' (aka 'enum H5F_mem_page_t') and 'enum H5F_mem_t') [-Wenum-enum-conversion] 2318 | end_type = (H5F_mem_page_t)(end_type + H5FD_MEM_NTYPES); | ~~~~~~~~ ^ ~~~~~~~~~~~~~~~ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/b/src/src/H5MF.c:2372:38: warning: arithmetic between different enumeration types ('H5F_mem_page_t' (aka 'enum H5F_mem_page_t') and 'enum H5F_mem_t') [-Wenum-enum-conversion] 2372 | ty = (H5F_mem_page_t)(ty + H5FD_MEM_NTYPES - 2); | ~~ ^ ~~~~~~~~~~~~~~~ 3 warnings generated. 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src/CMakeFiles/hdf5-static.dir/H5Zscaleoffset.c.o [350/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Ztrans.c.o [351/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Shyper.c.o [352/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Tconv_float.c.o [353/356] Building C object src/CMakeFiles/hdf5-static.dir/H5Tconv_integer.c.o [354/356] Linking C static library src/libhdf5.a [355/356] Linking C executable utils/mirror_vfd/mirror_server [356/356] Linking C executable utils/mirror_vfd/mirror_server_stop hdf5/1.14.6: Package '459c23bd7d939071d1d944c503840db7579be036' built hdf5/1.14.6: Build folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/b/build/Release hdf5/1.14.6: Generating the package hdf5/1.14.6: Packaging in folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p hdf5/1.14.6: Calling package() hdf5/1.14.6: Running CMake.install() hdf5/1.14.6: RUN: cmake --install "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/b/build/Release" --prefix "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p" -- Install configuration: "Release" -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/hdf5.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5api_adpt.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5encode.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5public.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5Apublic.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5ACpublic.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5Cpublic.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5Dpublic.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5Epubgen.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5Epublic.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5ESdevelop.h -- Installing: 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Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5FDlog.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5FDmirror.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5FDmpi.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5FDmpio.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5FDmulti.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5FDonion.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5FDpublic.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5FDros3.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5FDs3comms.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5FDsec2.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5FDsplitter.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5FDstdio.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5FDwindows.h -- Installing: 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/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5VLnative.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5VLpassthru.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5VLpublic.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5Zdevelop.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5Zpublic.h -- Up-to-date: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5Epubgen.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5version.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5overflow.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5/H5pubconf.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/lib/libhdf5.a -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/lib/pkgconfig/hdf5.pc -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/bin/h5cc -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/bin/mirror_server -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/bin/mirror_server_stop -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/bin/h5fuse -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/lib/libhdf5.settings hdf5/1.14.6: package(): Packaged 59 '.h' files hdf5/1.14.6: package(): Packaged 5 files hdf5/1.14.6: package(): Packaged 1 '.a' file: libhdf5.a hdf5/1.14.6: package(): Packaged 2 '.cmake' files: conan-official-hdf5-variables.cmake, conan-official-hdf5-targets.cmake hdf5/1.14.6: Created package revision 9352507e6d83a91902b988f952916709 hdf5/1.14.6: Package '459c23bd7d939071d1d944c503840db7579be036' created hdf5/1.14.6: Full package reference: hdf5/1.14.6#6f1acd01d23d00735fe97300f4d5980c:459c23bd7d939071d1d944c503840db7579be036#9352507e6d83a91902b988f952916709 hdf5/1.14.6: Package folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p mimalloc/1.7.6: Sources downloaded from 'conancenter' mimalloc/1.7.6: Calling source() in /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/mimal7e4fa21301eb0/s/src mimalloc/1.7.6: Uncompressing v1.7.6.tar.gz to . -------- Installing package mimalloc/1.7.6 (17 of 21) -------- mimalloc/1.7.6: Building from source mimalloc/1.7.6: Package mimalloc/1.7.6:7182e778f8a09f43d949188464662de5f4652380 mimalloc/1.7.6: settings: os=Linux arch=x86_64 compiler=clang compiler.cppstd=17 compiler.libcxx=libstdc++11 compiler.version=19 build_type=Release mimalloc/1.7.6: options: fPIC=True override=False secure=False shared=False mimalloc/1.7.6: Copying sources to build folder mimalloc/1.7.6: Building your package in /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/b mimalloc/1.7.6: Calling generate() mimalloc/1.7.6: Generators folder: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/b/build/Release/generators mimalloc/1.7.6: CMakeToolchain generated: conan_toolchain.cmake mimalloc/1.7.6: CMakeToolchain generated: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/b/build/Release/generators/CMakePresets.json mimalloc/1.7.6: CMakeToolchain generated: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/b/src/CMakeUserPresets.json mimalloc/1.7.6: Generating aggregated env files mimalloc/1.7.6: Generated aggregated env files: ['conanbuild.sh', 'conanrun.sh'] mimalloc/1.7.6: Calling build() mimalloc/1.7.6: Apply patch (conan): fix install paths mimalloc/1.7.6: Running CMake.configure() mimalloc/1.7.6: RUN: cmake -G "Ninja" -DCMAKE_TOOLCHAIN_FILE="generators/conan_toolchain.cmake" -DCMAKE_INSTALL_PREFIX="/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/p" -DCMAKE_POLICY_VERSION_MINIMUM="3.5" -DCMAKE_POLICY_DEFAULT_CMP0091="NEW" -DCMAKE_BUILD_TYPE="Release" "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/b/src" CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Using Conan toolchain: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/b/build/Release/generators/conan_toolchain.cmake -- Conan toolchain: Setting CMAKE_POSITION_INDEPENDENT_CODE=ON (options.fPIC) -- Conan toolchain: Defining architecture flag: -m64 -- Conan toolchain: Defining libcxx as C++ flags: -stdlib=libstdc++ -- Conan toolchain: C++ Standard 17 with extensions OFF -- Conan toolchain: Setting BUILD_SHARED_LIBS = OFF -- The C compiler identification is Clang 19.1.7 -- The CXX compiler identification is Clang 19.1.7 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/clang-19 - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/clang++-19 - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done CMake Warning (dev) at /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/b/build/Release/generators/conan_toolchain.cmake:57 (if): Policy CMP0054 is not set: Only interpret if() arguments as variables or keywords when unquoted. Run "cmake --help-policy CMP0054" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Quoted variables like "CMAKE_C_STANDARD" will no longer be dereferenced when the policy is set to NEW. Since the policy is not set the OLD behavior will be used. Call Stack (most recent call first): CMakeLists.txt:9223372036854775807 (conan_modify_std_watch) CMakeLists.txt:5 (set) This warning is for project developers. Use -Wno-dev to suppress it. -- -- -- Library base name: mimalloc -- Version : 1.7 -- Build type : release -- C Compiler : /usr/bin/clang-19 -- Compiler flags : -Wall;-Wextra;-Wno-unknown-pragmas;-fvisibility=hidden;-Wstrict-prototypes;-Wpedantic;-Wno-static-in-inline;-ftls-model=initial-exec -- Compiler defines : -- Link libraries : /usr/lib/x86_64-linux-gnu/libpthread.a;/usr/lib/x86_64-linux-gnu/librt.a -- Build targets : static -- -- Configuring done (0.7s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_POLICY_VERSION_MINIMUM -- Build files have been written to: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/b/build/Release mimalloc/1.7.6: Running CMake.build() mimalloc/1.7.6: RUN: cmake --build "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/b/build/Release" -- -j32 [1/15] Building C object CMakeFiles/mimalloc-static.dir/src/alloc-posix.c.o [2/15] Building C object CMakeFiles/mimalloc-static.dir/src/init.c.o [3/15] Building C object CMakeFiles/mimalloc-static.dir/src/random.c.o [4/15] Building C object CMakeFiles/mimalloc-static.dir/src/arena.c.o [5/15] Building C object CMakeFiles/mimalloc-static.dir/src/region.c.o [6/15] Building C object CMakeFiles/mimalloc-static.dir/src/alloc-aligned.c.o [7/15] Building C object CMakeFiles/mimalloc-static.dir/src/stats.c.o [8/15] Building C object CMakeFiles/mimalloc-static.dir/src/heap.c.o /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/b/src/src/heap.c:34:10: warning: variable 'count' set but not used [-Wunused-but-set-variable] 34 | size_t count = 0; | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/b/src/src/heap.c:488:10: warning: variable 'free_count' set but not used [-Wunused-but-set-variable] 488 | size_t free_count = 0; | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/b/src/src/heap.c:503:10: warning: variable 'used_count' set but not used [-Wunused-but-set-variable] 503 | size_t used_count = 0; | ^ 3 warnings generated. [9/15] Building C object CMakeFiles/mimalloc-static.dir/src/options.c.o /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/b/src/src/options.c:266:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 266 | static void mi_add_stderr_output() { | ^ | void 1 warning generated. [10/15] Building C object CMakeFiles/mimalloc-static.dir/src/bitmap.c.o [11/15] Building C object CMakeFiles/mimalloc-static.dir/src/os.c.o [12/15] Building C object CMakeFiles/mimalloc-static.dir/src/alloc.c.o [13/15] Building C object CMakeFiles/mimalloc-static.dir/src/segment.c.o [14/15] Building C object CMakeFiles/mimalloc-static.dir/src/page.c.o /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/b/src/src/page.c:661:10: warning: variable 'count' set but not used [-Wunused-but-set-variable] 661 | size_t count = 0; | ^ 1 warning generated. [15/15] Linking C static library libmimalloc.a mimalloc/1.7.6: Package '7182e778f8a09f43d949188464662de5f4652380' built mimalloc/1.7.6: Build folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/b/build/Release mimalloc/1.7.6: Generating the package mimalloc/1.7.6: Packaging in folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/p mimalloc/1.7.6: Calling package() mimalloc/1.7.6: Running CMake.install() mimalloc/1.7.6: RUN: cmake --install "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/b/build/Release" --prefix "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/p" -- Install configuration: "Release" -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/p/lib/libmimalloc.a -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/p/lib/cmake/mimalloc/mimalloc.cmake -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/p/lib/cmake/mimalloc/mimalloc-release.cmake -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/p/include/mimalloc.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/p/include/mimalloc-override.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/p/include/mimalloc-new-delete.h -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/p/lib/cmake/mimalloc/mimalloc-config.cmake -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/p/lib/cmake/mimalloc/mimalloc-config-version.cmake mimalloc/1.7.6: package(): Packaged 3 '.h' files: mimalloc-override.h, mimalloc.h, mimalloc-new-delete.h mimalloc/1.7.6: package(): Packaged 1 file: LICENSE mimalloc/1.7.6: package(): Packaged 1 '.a' file: libmimalloc.a mimalloc/1.7.6: Created package revision 92e380ad99985d0ccd1d15f01b158940 mimalloc/1.7.6: Package '7182e778f8a09f43d949188464662de5f4652380' created mimalloc/1.7.6: Full package reference: mimalloc/1.7.6#38e7b2fbff43efcae957e6a530a62b76:7182e778f8a09f43d949188464662de5f4652380#92e380ad99985d0ccd1d15f01b158940 mimalloc/1.7.6: Package folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/p arrow/20.0.0: Sources downloaded from 'conancenter' arrow/20.0.0: Calling source() in /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/arrowbf38f96f0b54f/s/src arrow/20.0.0: Downloading 17.9MB apache-arrow-20.0.0.tar.gz arrow/20.0.0: Downloaded 6.6MB 36% apache-arrow-20.0.0.tar.gz arrow/20.0.0: Downloaded 13.0MB 72% apache-arrow-20.0.0.tar.gz arrow/20.0.0: Uncompressing apache-arrow-20.0.0.tar.gz to . arrow/20.0.0: Apply patch (conan): use cci package -------- Installing package arrow/20.0.0 (19 of 21) -------- arrow/20.0.0: Building from source arrow/20.0.0: Package arrow/20.0.0:51eeeffaf29d9c85dd1e3b891e9e982f9bd79c56 arrow/20.0.0: settings: os=Linux arch=x86_64 compiler=clang compiler.cppstd=17 compiler.libcxx=libstdc++11 compiler.version=19 build_type=Release arrow/20.0.0: options: acero=False cli=False compute=True dataset_modules=False deprecated=True encryption=False fPIC=True filesystem_layer=False gandiva=False hdfs_bridgs=False parquet=False plasma=deprecated runtime_simd_level=max shared=False simd_level=default skyhook=False substrait=False with_backtrace=False with_boost=False with_brotli=False with_bz2=False with_csv=False with_cuda=False with_flight_rpc=False with_flight_sql=False with_gcs=False with_gflags=False with_glog=False with_grpc=False with_jemalloc=False with_json=False with_llvm=False with_lz4=False with_mimalloc=True with_openssl=False with_opentelemetry=False with_orc=False with_protobuf=False with_re2=True with_s3=False with_snappy=False with_thrift=False with_utf8proc=False with_zlib=False with_zstd=False arrow/20.0.0: requires: mimalloc/1.7.Z xsimd/13.0.0#3e7543dc526b0f612fe291e0f198c9dc:da39a3ee5e6b4b0d3255bfef95601890afd80709 re2/20230301.0.Z arrow/20.0.0: Copying sources to build folder arrow/20.0.0: Building your package in /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/b arrow/20.0.0: Calling generate() arrow/20.0.0: Generators folder: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/b/build/Release/generators arrow/20.0.0: CMakeToolchain generated: conan_toolchain.cmake arrow/20.0.0: CMakeToolchain generated: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/b/build/Release/generators/CMakePresets.json arrow/20.0.0: Generating aggregated env files arrow/20.0.0: Generated aggregated env files: ['conanbuild.sh', 'conanrun.sh'] arrow/20.0.0: Calling build() arrow/20.0.0: Running CMake.configure() arrow/20.0.0: RUN: cmake -G "Ninja" -DCMAKE_TOOLCHAIN_FILE="generators/conan_toolchain.cmake" -DCMAKE_INSTALL_PREFIX="/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/p" -DCMAKE_PROJECT_arrow_INCLUDE="/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/b/src/conan_cmake_project_include.cmake" -DCMAKE_POLICY_DEFAULT_CMP0091="NEW" -DCMAKE_BUILD_TYPE="Release" "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/b/src/cpp" -- Building using CMake version: 3.31.8 -- Using Conan toolchain: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/b/build/Release/generators/conan_toolchain.cmake -- Conan toolchain: Setting CMAKE_POSITION_INDEPENDENT_CODE=ON (options.fPIC) -- Conan toolchain: Defining architecture flag: -m64 -- Conan toolchain: Defining libcxx as C++ flags: -stdlib=libstdc++ -- Conan toolchain: C++ Standard 17 with extensions OFF -- Conan toolchain: Setting BUILD_SHARED_LIBS = OFF -- The C compiler identification is Clang 19.1.7 -- The CXX compiler identification is Clang 19.1.7 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/clang-19 - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/clang++-19 - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Arrow version: 20.0.0 (full: '20.0.0') -- Arrow SO version: 2000 (full: 2000.0.0) -- clang-tidy 14 not found -- clang-format 14 not found -- Could NOT find ClangTools (missing: CLANG_FORMAT_BIN CLANG_TIDY_BIN) -- infer not found -- Found Python3: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/venv/bin/python3.13 (found version "3.13.5") found components: Interpreter fatal: not a git repository (or any of the parent directories): .git -- Found cpplint executable at /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/b/src/cpp/build-support/cpplint.py -- System processor: x86_64 -- Performing Test CXX_SUPPORTS_SSE4_2 -- Performing Test CXX_SUPPORTS_SSE4_2 - Success -- Performing Test CXX_SUPPORTS_AVX2 -- Performing Test CXX_SUPPORTS_AVX2 - Success -- Performing Test CXX_SUPPORTS_AVX512 -- Performing Test CXX_SUPPORTS_AVX512 - Success -- Arrow build warning level: PRODUCTION -- Using ld linker -- Build Type: RELEASE -- Performing Test CXX_LINKER_SUPPORTS_VERSION_SCRIPT -- Performing Test CXX_LINKER_SUPPORTS_VERSION_SCRIPT - Success -- Using SYSTEM approach to find dependencies -- ARROW_ABSL_BUILD_VERSION: 20211102.0 -- ARROW_ABSL_BUILD_SHA256_CHECKSUM: dcf71b9cba8dc0ca9940c4b316a0c796be8fab42b070bb6b7cab62b48f0e66c4 -- ARROW_AWS_C_AUTH_BUILD_VERSION: v0.6.22 -- ARROW_AWS_C_AUTH_BUILD_SHA256_CHECKSUM: 691a6b4418afcd3dc141351b6ad33fccd8e3ff84df0e9e045b42295d284ee14c -- ARROW_AWS_C_CAL_BUILD_VERSION: v0.5.20 -- ARROW_AWS_C_CAL_BUILD_SHA256_CHECKSUM: acc352359bd06f8597415c366cf4ec4f00d0b0da92d637039a73323dd55b6cd0 -- ARROW_AWS_C_COMMON_BUILD_VERSION: v0.8.9 -- ARROW_AWS_C_COMMON_BUILD_SHA256_CHECKSUM: 2f3fbaf7c38eae5a00e2a816d09b81177f93529ae8ba1b82dc8f31407565327a -- 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Minimum OpenSSL version 1.0.2 required. -- Conan: Target declared 'mimalloc::mimalloc' -- Conan: Target declared 'xsimd' -- xsimd found. Headers: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/xsimd1ca23010ddae9/p/include -- Conan: Target declared 're2::re2' -- Providing CMake module for Findre2Alt as part of Arrow CMake package -- Using pkg-config package for re2 that is used by arrow for static link -- Found hdfs.h at: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/b/src/cpp/thirdparty/hadoop/include/hdfs.h -- All bundled static libraries: -- CMAKE_C_FLAGS: -g -O3 -Wall -pedantic -m64 -Qunused-arguments -Wall -Wno-unknown-warning-option -Wno-pass-failed -msse4.2 -- CMAKE_CXX_FLAGS: -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -Wdeprecated-literal-operator -m64 -stdlib=libstdc++ -Qunused-arguments -fcolor-diagnostics -Wall -Wno-unknown-warning-option -Wno-pass-failed -msse4.2 -- CMAKE_C_FLAGS_RELEASE: -O3 -DNDEBUG -O2 -- CMAKE_CXX_FLAGS_RELEASE: -O3 -DNDEBUG -O2 -- 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[default=ON] -- Whether to create position-independent target -- ARROW_USE_CCACHE=ON [default=ON] -- Use ccache when compiling (if available) -- ARROW_USE_SCCACHE=ON [default=ON] -- Use sccache when compiling (if available), -- takes precedence over ccache if a storage backend is configured -- ARROW_USE_LD_GOLD=OFF [default=OFF] -- Use ld.gold for linking on Linux (if available) -- ARROW_USE_LLD=OFF [default=OFF] -- Use the LLVM lld for linking (if available) -- ARROW_USE_MOLD=OFF [default=OFF] -- Use mold for linking on Linux (if available) -- ARROW_USE_PRECOMPILED_HEADERS=OFF [default=OFF] -- Use precompiled headers when compiling -- ARROW_SIMD_LEVEL=SSE4_2 [default=DEFAULT|NONE|SSE4_2|AVX2|AVX512|NEON|SVE|SVE128|SVE256|SVE512] -- Compile-time SIMD optimization level -- ARROW_RUNTIME_SIMD_LEVEL=MAX [default=MAX|NONE|SSE4_2|AVX2|AVX512] -- Max runtime SIMD optimization level -- ARROW_ALTIVEC=ON [default=ON] -- Build with Altivec if compiler has support -- ARROW_RPATH_ORIGIN=OFF [default=OFF] -- Build Arrow libraries with RATH set to $ORIGIN -- ARROW_INSTALL_NAME_RPATH=ON [default=ON] -- Build Arrow libraries with install_name set to @rpath -- ARROW_GGDB_DEBUG=ON [default=ON] -- Pass -ggdb flag to debug builds -- ARROW_WITH_MUSL=OFF [default=OFF] -- Whether the system libc is musl or not -- ARROW_ENABLE_THREADING=ON [default=ON] -- Enable threading in Arrow core -- -- Test and benchmark options: -- -- ARROW_BUILD_EXAMPLES=OFF [default=OFF] -- Build the Arrow examples -- ARROW_BUILD_TESTS=OFF [default=OFF] -- Build the Arrow googletest unit tests -- ARROW_ENABLE_TIMING_TESTS=OFF [default=ON] -- Enable timing-sensitive tests -- ARROW_BUILD_INTEGRATION=OFF [default=OFF] -- Build the Arrow integration test executables -- ARROW_BUILD_BENCHMARKS=OFF [default=OFF] -- Build the Arrow micro benchmarks -- ARROW_BUILD_BENCHMARKS_REFERENCE=OFF [default=OFF] -- Build the Arrow micro reference benchmarks -- ARROW_BUILD_DETAILED_BENCHMARKS=OFF [default=OFF] -- Build benchmarks that do a longer exploration of performance -- ARROW_TEST_LINKAGE=static [default=static|shared] -- Linkage of Arrow libraries with unit tests executables. -- ARROW_FUZZING=OFF [default=OFF] -- Build Arrow Fuzzing executables -- ARROW_LARGE_MEMORY_TESTS=OFF [default=OFF] -- Enable unit tests which use large memory -- -- Lint options: -- -- ARROW_ONLY_LINT=OFF [default=OFF] -- Only define the lint and check-format targets -- ARROW_VERBOSE_LINT=OFF [default=OFF] -- If off, 'quiet' flags will be passed to linting tools -- ARROW_GENERATE_COVERAGE=OFF [default=OFF] -- Build with C++ code coverage enabled -- -- Checks options: -- -- ARROW_TEST_MEMCHECK=OFF [default=OFF] -- Run the test suite using valgrind --tool=memcheck -- ARROW_USE_ASAN=OFF [default=OFF] -- Enable Address Sanitizer checks -- ARROW_USE_TSAN=OFF [default=OFF] -- Enable Thread Sanitizer checks -- ARROW_USE_UBSAN=OFF [default=OFF] -- Enable Undefined Behavior sanitizer checks -- -- Project component options: -- -- ARROW_ACERO=OFF [default=OFF] -- Build the Arrow Acero Engine Module -- ARROW_AZURE=OFF [default=OFF] -- Build Arrow with Azure support (requires the Azure SDK for C++) -- ARROW_BUILD_UTILITIES=OFF [default=OFF] -- Build Arrow commandline utilities -- ARROW_COMPUTE=ON [default=OFF] -- Build all Arrow Compute kernels -- ARROW_CSV=OFF [default=OFF] -- Build the Arrow CSV Parser Module -- ARROW_CUDA=OFF [default=OFF] -- Build the Arrow CUDA extensions (requires CUDA toolkit) -- ARROW_DATASET=False [default=OFF] -- Build the Arrow Dataset Modules -- ARROW_FILESYSTEM=OFF [default=OFF] -- Build the Arrow Filesystem Layer -- ARROW_FLIGHT=False [default=OFF] -- Build the Arrow Flight RPC System (requires GRPC, Protocol Buffers) -- ARROW_FLIGHT_SQL=OFF [default=OFF] -- Build the Arrow Flight SQL extension -- ARROW_GANDIVA=OFF [default=OFF] -- Build the Gandiva libraries -- ARROW_GCS=OFF [default=OFF] -- Build Arrow with GCS support (requires the GCloud SDK for C++) -- ARROW_HDFS=OFF [default=OFF] -- Build the Arrow HDFS bridge -- ARROW_IPC=ON [default=ON] -- Build the Arrow IPC extensions -- ARROW_JEMALLOC=False [default=OFF] -- Build the Arrow jemalloc-based allocator -- ARROW_JSON=OFF [default=OFF] -- Build Arrow with JSON support (requires RapidJSON) -- ARROW_MIMALLOC=ON [default=ON] -- Build the Arrow mimalloc-based allocator -- ARROW_PARQUET=False [default=OFF] -- Build the Parquet libraries -- ARROW_ORC=OFF [default=OFF] -- Build the Arrow ORC adapter -- ARROW_PYTHON=OFF [default=OFF] -- Build some components needed by PyArrow. -- (This is a deprecated option. Use CMake presets instead.) -- ARROW_S3=OFF [default=OFF] -- Build Arrow with S3 support (requires the AWS SDK for C++) -- ARROW_SKYHOOK=OFF [default=OFF] -- Build the Skyhook libraries -- ARROW_SUBSTRAIT=OFF [default=OFF] -- Build the Arrow Substrait Consumer Module -- ARROW_TENSORFLOW=OFF [default=OFF] -- Build Arrow with TensorFlow support enabled -- ARROW_TESTING=OFF [default=OFF] -- Build the Arrow testing libraries -- -- Thirdparty toolchain options: -- -- ARROW_DEPENDENCY_SOURCE=SYSTEM [default=AUTO|BUNDLED|SYSTEM|CONDA|VCPKG|BREW] -- Method to use for acquiring arrow's build dependencies -- ARROW_VERBOSE_THIRDPARTY_BUILD=ON [default=OFF] -- Show output from ExternalProjects rather than just logging to files -- ARROW_DEPENDENCY_USE_SHARED=ON [default=ON] -- Link to shared libraries -- ARROW_BOOST_USE_SHARED=ON [default=ON] -- Rely on Boost shared libraries where relevant -- ARROW_BROTLI_USE_SHARED=ON [default=ON] -- Rely on Brotli shared libraries where relevant -- ARROW_BZ2_USE_SHARED=ON [default=ON] -- Rely on Bz2 shared libraries where relevant -- ARROW_GFLAGS_USE_SHARED=ON [default=ON] -- Rely on GFlags shared libraries where relevant -- ARROW_GRPC_USE_SHARED=ON [default=ON] -- Rely on gRPC shared libraries where relevant -- ARROW_JEMALLOC_USE_SHARED=ON [default=ON] -- Rely on jemalloc shared libraries where relevant -- ARROW_LLVM_USE_SHARED=ON [default=ON] -- Rely on LLVM shared libraries where relevant -- ARROW_LZ4_USE_SHARED=ON [default=ON] -- Rely on lz4 shared libraries where relevant -- ARROW_OPENSSL_USE_SHARED=ON [default=ON] -- Rely on OpenSSL shared libraries where relevant -- ARROW_PROTOBUF_USE_SHARED=ON [default=ON] -- Rely on Protocol Buffers shared libraries where relevant -- ARROW_SNAPPY_USE_SHARED=ON [default=ON] -- Rely on snappy shared libraries where relevant -- ARROW_THRIFT_USE_SHARED=ON [default=ON] -- Rely on thrift shared libraries where relevant -- ARROW_UTF8PROC_USE_SHARED=ON [default=ON] -- Rely on utf8proc shared libraries where relevant -- ARROW_ZSTD_USE_SHARED=ON [default=ON] -- Rely on zstd shared libraries where relevant -- ARROW_USE_GLOG=False [default=OFF] -- Build libraries with glog support for pluggable logging -- ARROW_WITH_BACKTRACE=OFF [default=ON] -- Build with backtrace support -- ARROW_WITH_OPENTELEMETRY=OFF [default=OFF] -- Build libraries with OpenTelemetry support for distributed tracing -- ARROW_WITH_BROTLI=OFF [default=OFF] -- Build with Brotli compression -- ARROW_WITH_BZ2=OFF [default=OFF] -- Build with BZ2 compression -- ARROW_WITH_LZ4=OFF [default=OFF] -- Build with lz4 compression -- ARROW_WITH_SNAPPY=OFF [default=OFF] -- Build with Snappy compression -- ARROW_WITH_ZLIB=OFF [default=OFF] -- Build with zlib compression -- ARROW_WITH_ZSTD=OFF [default=OFF] -- Build with zstd compression -- ARROW_WITH_UTF8PROC=False [default=ON] -- Build with support for Unicode properties using the utf8proc library -- (only used if ARROW_COMPUTE is ON or ARROW_GANDIVA is ON) -- ARROW_WITH_RE2=ON [default=ON] -- Build with support for regular expressions using the re2 library -- (only used if ARROW_COMPUTE or ARROW_GANDIVA is ON) -- -- Parquet options: -- -- PARQUET_MINIMAL_DEPENDENCY=OFF [default=OFF] -- Depend only on Thirdparty headers to build libparquet. -- Always OFF if building binaries -- PARQUET_BUILD_EXECUTABLES=OFF [default=OFF] -- Build the Parquet executable CLI tools. Requires static libraries to be built. -- PARQUET_BUILD_EXAMPLES=OFF [default=OFF] -- Build the Parquet examples. Requires static libraries to be built. -- PARQUET_REQUIRE_ENCRYPTION=OFF [default=OFF] -- Build support for encryption. Fail if OpenSSL is not found -- -- Gandiva options: -- -- ARROW_GANDIVA_STATIC_LIBSTDCPP=OFF [default=OFF] -- Include -static-libstdc++ -static-libgcc when linking with -- Gandiva static libraries -- ARROW_GANDIVA_PC_CXX_FLAGS="" [default=""] -- Compiler flags to append when pre-compiling Gandiva operations -- -- Cross compiling options: -- -- ARROW_GRPC_CPP_PLUGIN="" [default=""] -- grpc_cpp_plugin path to be used -- -- Advanced developer options: -- -- ARROW_EXTRA_ERROR_CONTEXT=OFF [default=OFF] -- Compile with extra error context (line numbers, code) -- ARROW_OPTIONAL_INSTALL=OFF [default=OFF] -- If enabled install ONLY targets that have already been built. Please be -- advised that if this is enabled 'install' will fail silently on components -- that have not been built -- ARROW_GDB_INSTALL_DIR="" [default=""] -- Use a custom install directory for GDB plugin. -- In general, you don't need to specify this because the default -- (CMAKE_INSTALL_FULL_BINDIR on Windows, CMAKE_INSTALL_FULL_LIBDIR otherwise) -- is reasonable. -- Outputting build configuration summary to /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/b/build/Release/cmake_summary.json -- Configuring done (28.0s) -- Generating done (0.1s) -- Build files have been written to: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/b/build/Release arrow/20.0.0: Running CMake.build() arrow/20.0.0: RUN: cmake --build "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/b/build/Release" -- -j32 [1/228] Building CXX object 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START_SCOPED_SPAN_SV(span, "AsyncTaskScheduler::InitialTask"sv); | ^ /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/b/src/cpp/src/arrow/util/tracing_internal.h:229:11: note: macro 'START_SCOPED_SPAN_SV' defined here 229 | # define START_SCOPED_SPAN_SV(target_span, name, ...) ::arrow::internal::tracing::Scope() | ^ 1 warning generated. 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/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/p/share/doc/arrow/LICENSE.txt -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/p/share/doc/arrow/NOTICE.txt -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/p/share/doc/arrow/README.md -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/p/share/arrow/gdb/gdb_arrow.py arrow/20.0.0: package(): Packaged 254 '.h' files arrow/20.0.0: package(): Packaged 3 '.hpp' files: pcg_uint128.hpp, pcg_extras.hpp, pcg_random.hpp arrow/20.0.0: package(): Packaged 2 '.txt' files: LICENSE.txt, NOTICE.txt arrow/20.0.0: package(): Packaged 1 '.a' file: libarrow.a arrow/20.0.0: Created package revision ee41a02ffbfd97a07ee2935bf607242b arrow/20.0.0: Package '51eeeffaf29d9c85dd1e3b891e9e982f9bd79c56' created arrow/20.0.0: Full package reference: arrow/20.0.0#6e04404a336dd16f08062f6923e6f8f1:51eeeffaf29d9c85dd1e3b891e9e982f9bd79c56#ee41a02ffbfd97a07ee2935bf607242b arrow/20.0.0: Package folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/p hictk/2.1.4: Calling source() in /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/hictk30e1d154bc342/s/src hictk/2.1.4: Uncompressing v2.1.4.tar.gz to . -------- Installing package hictk/2.1.4 (21 of 21) -------- hictk/2.1.4: Building from source hictk/2.1.4: Package hictk/2.1.4:da39a3ee5e6b4b0d3255bfef95601890afd80709 hictk/2.1.4: Copying sources to build folder hictk/2.1.4: Building your package in /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/b hictk/2.1.4: Calling generate() hictk/2.1.4: Generators folder: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/b/build/Release/generators hictk/2.1.4: CMakeToolchain generated: conan_toolchain.cmake hictk/2.1.4: CMakeToolchain generated: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/b/build/Release/generators/CMakePresets.json hictk/2.1.4: CMakeToolchain generated: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/b/src/CMakeUserPresets.json hictk/2.1.4: CMakeDeps necessary find_package() and targets for your CMakeLists.txt find_package(Arrow) find_package(bshoshany-thread-pool) find_package(concurrentqueue) find_package(Eigen3) find_package(FastFloat) find_package(HighFive) find_package(HDF5) find_package(libdeflate) find_package(phmap) find_package(readerwriterqueue) find_package(span-lite) find_package(spdlog) find_package(fmt) find_package(zstd) target_link_libraries(... arrow::arrow bshoshany-thread-pool::bshoshany-thread-pool concurrentqueue::concurrentqueue Eigen3::Eigen FastFloat::fast_float HighFive HDF5::HDF5 libdeflate::libdeflate_static phmap readerwriterqueue::readerwriterqueue nonstd::span-lite spdlog::spdlog_header_only fmt::fmt-header-only zstd::libzstd_static) hictk/2.1.4: Generating aggregated env files hictk/2.1.4: Generated aggregated env files: ['conanbuild.sh', 'conanrun.sh'] hictk/2.1.4: Calling build() hictk/2.1.4: Apply patch (portability): Support including Eigen headers located under eigen3/ hictk/2.1.4: Running CMake.configure() hictk/2.1.4: RUN: cmake -G "Ninja" -DCMAKE_TOOLCHAIN_FILE="generators/conan_toolchain.cmake" -DCMAKE_INSTALL_PREFIX="/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p" -DCMAKE_POLICY_DEFAULT_CMP0091="NEW" -DCMAKE_BUILD_TYPE="Release" "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/b/src" -- Using Conan toolchain: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/b/build/Release/generators/conan_toolchain.cmake -- Conan toolchain: Defining architecture flag: -m64 -- Conan toolchain: Defining libcxx as C++ flags: -stdlib=libstdc++ -- Conan toolchain: C++ Standard 17 with extensions OFF -- The C compiler identification is Clang 19.1.7 -- The CXX compiler identification is Clang 19.1.7 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/clang-19 - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/clang++-19 - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- project_options: skipping msvc_toolchain as CMAKE_TOOLCHAIN_FILE is set -- Developer mode is OFF. For developement, use `-DENABLE_DEVELOPER_MODE:BOOL=ON`. Building the project for the end-user... -- Interprocedural optimization is enabled. In other projects, linking with the compiled libraries of this project might require `set(CMAKE_INTERPROCEDURAL_OPTIMIZATION ON)` CMake Warning at /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/b/build/Release/_deps/_hictk_project_options-src/src/Cache.cmake:23 (message): ccache is enabled but was not found. Not using it Call Stack (most recent call first): /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/b/build/Release/_deps/_hictk_project_options-src/src/Index.cmake:247 (enable_cache) /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/b/build/Release/_deps/_hictk_project_options-src/src/DynamicProjectOptions.cmake:250 (project_options) CMakeLists.txt:107 (dynamic_project_options) -- Detected LITTLE_ENDIAN architecture -- Configuring done (1.3s) -- Generating done (0.0s) -- Build files have been written to: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/b/build/Release hictk/2.1.4: Running CMake.build() hictk/2.1.4: RUN: cmake --build "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/b/build/Release" -- -j32 ninja: no work to do. hictk/2.1.4: Package 'da39a3ee5e6b4b0d3255bfef95601890afd80709' built hictk/2.1.4: Build folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/b/build/Release hictk/2.1.4: Generating the package hictk/2.1.4: Packaging in folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p hictk/2.1.4: Calling package() hictk/2.1.4: Running CMake.install() hictk/2.1.4: RUN: cmake --install "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/b/build/Release" --prefix "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p" -- Install configuration: "Release" -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/balancing/common.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/balancing/ice.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/balancing/methods.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/balancing/scale.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/balancing/sparse_matrix.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/balancing/vc.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/balancing/weights.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/balancing/impl/ice_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/balancing/impl/scale_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/balancing/impl/sparse_matrix_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/balancing/impl/vc_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/balancing/impl/weights_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/bin.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/bin_table.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/bin_table_fixed.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/bin_table_variable.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/impl/bin_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/impl/bin_table_fixed_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/impl/bin_table_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/impl/bin_table_variable_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/binary_buffer.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/impl/binary_buffer_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/chromosome.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/impl/chromosome_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/common.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/suppress_warnings.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/default_delete_libdeflate.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/default_delete_zstd.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/genomic_units.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/hash.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/static_binary_buffer.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/string.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/tmpdir.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/type_pretty_printer.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/type_traits.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/git.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/license.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/version.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/attribute.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/common.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/cooler.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/dataset.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/group.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/index.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/multires_cooler.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/pixel_selector.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/singlecell_cooler.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/uri.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/utils.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/validation.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/impl/attribute_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/impl/dataset_accessors_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/impl/dataset_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/impl/dataset_iterator_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/impl/dataset_read_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/impl/dataset_write_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/impl/file_accessors_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/impl/file_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/impl/file_read_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/cooler/impl/file_standard_attr_impl.hpp -- Installing: 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/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/transformers/impl/to_dense_matrix_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/transformers/impl/to_sparse_matrix_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/generic_variant.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/numeric_variant.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/variant_buff.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include/hictk/impl/variant_buff_impl.hpp -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/lib/cmake/hictk/hictkTargets.cmake -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/lib/cmake/hictk/hictkInternalTargets.cmake -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/lib/cmake/hictk/hictkConfig.cmake -- Installing: /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/share/licenses/hictk/LICENSE hictk/2.1.4: package(): Packaged 156 '.hpp' files hictk/2.1.4: package(): Packaged 1 file: LICENSE hictk/2.1.4: Created package revision 0f46f4f4f4828f0559f10320457f9afc hictk/2.1.4: Package 'da39a3ee5e6b4b0d3255bfef95601890afd80709' created hictk/2.1.4: Full package reference: hictk/2.1.4#ac0d26a8f881d628590b17403df6188c:da39a3ee5e6b4b0d3255bfef95601890afd80709#0f46f4f4f4828f0559f10320457f9afc hictk/2.1.4: Package folder /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p WARN: deprecated: Usage of deprecated Conan 1.X features that will be removed in Conan 2.X: WARN: deprecated: 'cpp_info.names' used in: parallel-hashmap/2.0.0, span-lite/0.11.0, hdf5/1.14.6, zlib/1.3.1, libdeflate/1.23, fast_float/8.0.2 WARN: deprecated: 'cpp_info.build_modules' used in: parallel-hashmap/2.0.0, xsimd/13.0.0, hdf5/1.14.6 WARN: deprecated: 'cpp_info.filenames' used in: span-lite/0.11.0 ======== Input profiles ======== Profile host: [settings] arch=x86_64 build_type=Release compiler=clang compiler.cppstd=17 compiler.libcxx=libstdc++11 compiler.version=19 os=Linux [conf] tools.cmake.cmaketoolchain:generator=Ninja Profile build: [settings] arch=x86_64 build_type=Release compiler=clang compiler.cppstd=gnu17 compiler.libcxx=libstdc++11 compiler.version=19 os=Linux ======== Computing dependency graph ======== Graph root cli Requirements arrow/20.0.0#6e04404a336dd16f08062f6923e6f8f1 - Cache bshoshany-thread-pool/5.0.0#d94da300363f0c35b8f41b2c5490c94d - Cache concurrentqueue/1.0.4#1e48e1c712bcfd892087c9c622a51502 - Cache eigen/3.4.90-unstable+git.2025.08.15#b407f03f085cdb246f6bcbadd84fe9db - Cache fast_float/8.0.2#846ad0ebab16bc265c511095c3b490e9 - Cache fmt/11.2.0#579bb2cdf4a7607621beea4eb4651e0f - Cache hdf5/1.14.6#6f1acd01d23d00735fe97300f4d5980c - Cache hictk/2.1.4#ac0d26a8f881d628590b17403df6188c - Cache highfive/2.10.0#75c849a0d940b2d4dae6055915132690 - Cache libdeflate/1.23#4994bea7cf7e93789da161fac8e26a53 - Cache mimalloc/1.7.6#38e7b2fbff43efcae957e6a530a62b76 - Cache parallel-hashmap/2.0.0#82acae64ffe2693fff5fb3f9df8e1746 - Cache re2/20230301#dfd6e2bf050eb90ddd8729cfb4c844a4 - Cache readerwriterqueue/1.0.6#aaa5ff6fac60c2aee591e9e51b063b83 - Cache span-lite/0.11.0#519fd49fff711674cfed8cd17d4ed422 - Cache spdlog/1.15.3#3ca0e9e6b83af4d0151e26541d140c86 - Cache xsimd/13.0.0#3e7543dc526b0f612fe291e0f198c9dc - Cache zlib/1.3.1#b8bc2603263cf7eccbd6e17e66b0ed76 - Cache zstd/1.5.7#fde461c0d847a22f16d3066774f61b11 - Cache Build requirements cmake/3.31.8#dde3bde00bb843687e55aea5afa0e220 - Cache cmake/4.1.0#c45377ac8029e0a1738a0c40269991c3 - Cache Resolved version ranges cmake/[>=3.18 <4]: cmake/3.31.8 cmake/[>=3.25 <4]: cmake/3.31.8 cmake/[>=3.25]: cmake/4.1.0 zlib/[>=1.2.11 <2]: zlib/1.3.1 Overrides fmt/11.2.0#579bb2cdf4a7607621beea4eb4651e0f: [None, 'fmt/11.2.0#579bb2cdf4a7607621beea4eb4651e0f'] hdf5/1.14.3: ['hdf5/1.14.6#6f1acd01d23d00735fe97300f4d5980c'] ======== Computing necessary packages ======== Requirements arrow/20.0.0#6e04404a336dd16f08062f6923e6f8f1:51eeeffaf29d9c85dd1e3b891e9e982f9bd79c56#ee41a02ffbfd97a07ee2935bf607242b - Cache bshoshany-thread-pool/5.0.0#d94da300363f0c35b8f41b2c5490c94d:da39a3ee5e6b4b0d3255bfef95601890afd80709#97739a2d693ef762e87869abb6ee8f74 - Cache concurrentqueue/1.0.4#1e48e1c712bcfd892087c9c622a51502:da39a3ee5e6b4b0d3255bfef95601890afd80709#d76553f653b5b8bdf7b424d83820fea4 - Cache eigen/3.4.90-unstable+git.2025.08.15#b407f03f085cdb246f6bcbadd84fe9db:da39a3ee5e6b4b0d3255bfef95601890afd80709#e5ac635f9d0ddbf15482022ca1b3af33 - Cache fast_float/8.0.2#846ad0ebab16bc265c511095c3b490e9:da39a3ee5e6b4b0d3255bfef95601890afd80709#71fc9357d5e2977298ff6419eed246d0 - Cache fmt/11.2.0#579bb2cdf4a7607621beea4eb4651e0f:da39a3ee5e6b4b0d3255bfef95601890afd80709#2d083f45b55c6afb8ec50fb67dd3c16e - Cache hdf5/1.14.6#6f1acd01d23d00735fe97300f4d5980c:459c23bd7d939071d1d944c503840db7579be036#9352507e6d83a91902b988f952916709 - Cache hictk/2.1.4#ac0d26a8f881d628590b17403df6188c:da39a3ee5e6b4b0d3255bfef95601890afd80709#0f46f4f4f4828f0559f10320457f9afc - Cache highfive/2.10.0#75c849a0d940b2d4dae6055915132690:da39a3ee5e6b4b0d3255bfef95601890afd80709#858d2e0aff49c826f1f2da54c7bd5435 - Cache libdeflate/1.23#4994bea7cf7e93789da161fac8e26a53:035983102d94f5d9d7256017a5fd89651d1294c3#4fe891701b9b99e9f7b1fafba93a1dcc - Cache mimalloc/1.7.6#38e7b2fbff43efcae957e6a530a62b76:7182e778f8a09f43d949188464662de5f4652380#92e380ad99985d0ccd1d15f01b158940 - Cache parallel-hashmap/2.0.0#82acae64ffe2693fff5fb3f9df8e1746:da39a3ee5e6b4b0d3255bfef95601890afd80709#4e55822c19c91463e20e418d07bb83c0 - Cache re2/20230301#dfd6e2bf050eb90ddd8729cfb4c844a4:dc5068ba5fe1b6dbc8bed0d8e329d7004b0a76d9#fbbfa32978ad14af0c9e95a905296472 - Cache readerwriterqueue/1.0.6#aaa5ff6fac60c2aee591e9e51b063b83:da39a3ee5e6b4b0d3255bfef95601890afd80709#ecdfc46fa6d77a9ac39568d286082d22 - Cache span-lite/0.11.0#519fd49fff711674cfed8cd17d4ed422:da39a3ee5e6b4b0d3255bfef95601890afd80709#4688663223fa1898bdb770089ef588f0 - Cache spdlog/1.15.3#3ca0e9e6b83af4d0151e26541d140c86:da39a3ee5e6b4b0d3255bfef95601890afd80709#cd9a0d7c5d05bf77172be45346efa8c3 - Cache zlib/1.3.1#b8bc2603263cf7eccbd6e17e66b0ed76:035983102d94f5d9d7256017a5fd89651d1294c3#3059c38127b415abfcfb26808a79bcbe - Cache zstd/1.5.7#fde461c0d847a22f16d3066774f61b11:9308e58c41ad3f278ab5d5003e836d4248b52a61#6ab907975b6fda1c2fae07870dc4de94 - Cache Build requirements Skipped binaries xsimd/13.0.0, cmake/3.31.8, cmake/4.1.0 ======== Installing packages ======== bshoshany-thread-pool/5.0.0: Already installed! (1 of 18) concurrentqueue/1.0.4: Already installed! (2 of 18) eigen/3.4.90-unstable+git.2025.08.15: Already installed! (3 of 18) fast_float/8.0.2: Already installed! (4 of 18) fmt/11.2.0: Already installed! (5 of 18) libdeflate/1.23: Already installed! (6 of 18) parallel-hashmap/2.0.0: Already installed! (7 of 18) re2/20230301: Already installed! (8 of 18) readerwriterqueue/1.0.6: Already installed! (9 of 18) span-lite/0.11.0: Already installed! (10 of 18) zlib/1.3.1: Already installed! (11 of 18) zstd/1.5.7: Already installed! (12 of 18) mimalloc/1.7.6: Already installed! (13 of 18) hdf5/1.14.6: Already installed! (14 of 18) spdlog/1.15.3: Already installed! (15 of 18) arrow/20.0.0: Already installed! (16 of 18) highfive/2.10.0: Already installed! (17 of 18) hictk/2.1.4: Already installed! (18 of 18) WARN: deprecated: Usage of deprecated Conan 1.X features that will be removed in Conan 2.X: WARN: deprecated: 'cpp_info.names' used in: hdf5/1.14.6, zlib/1.3.1, libdeflate/1.23, fast_float/8.0.2, parallel-hashmap/2.0.0, span-lite/0.11.0 WARN: deprecated: 'cpp_info.build_modules' used in: hdf5/1.14.6, parallel-hashmap/2.0.0 WARN: deprecated: 'cpp_info.filenames' used in: span-lite/0.11.0 ======== Finalizing install (deploy, generators) ======== cli: Writing generators to /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/tmpn5gzzukt cli: Generator 'MakeDeps' calling 'generate()' cli: Generated conandeps.mk cli: Generating aggregated env files cli: Generated aggregated env files: ['conanbuild.sh', 'conanrun.sh'] Install finished successfully [2025-08-28 13:02:57,586] INFO: Makevars file has been written to "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/src/Makevars"... ### BEGIN Makevars export CC := /usr/bin/clang export CXX := /usr/bin/clang++ export CXX17 := /usr/bin/clang++ ### BEGINNING OF conandeps.mk # This Makefile has been generated by Conan. DO NOT EDIT! CONAN_DEPS = \ hictk \ arrow \ mimalloc \ re2 \ bshoshany-thread-pool \ concurrentqueue \ eigen \ fast_float \ highfive \ hdf5 \ zlib \ libdeflate \ parallel-hashmap \ readerwriterqueue \ span-lite \ spdlog \ fmt \ zstd # hictk/2.1.4 CONAN_NAME_HICTK = hictk CONAN_VERSION_HICTK = 2.1.4 CONAN_REFERENCE_HICTK = hictk/2.1.4 CONAN_ROOT_HICTK = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p CONAN_INCLUDE_DIRS_HICTK = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_HICTK)/include CONAN_DEFINES_HICTK = \ $(CONAN_DEFINE_FLAG)HICTK_WITH_ARROW \ $(CONAN_DEFINE_FLAG)HICTK_WITH_EIGEN CONAN_PROPERTY_HICTK_CMAKE_FILE_NAME = hictk CONAN_PROPERTY_HICTK_CMAKE_TARGET_NAME = hictk::libhictk # arrow/20.0.0 (indirect dependency) CONAN_NAME_ARROW = arrow CONAN_VERSION_ARROW = 20.0.0 CONAN_REFERENCE_ARROW = arrow/20.0.0 CONAN_ROOT_ARROW = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/p CONAN_INCLUDE_DIRS_ARROW = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_ARROW)/include CONAN_LIB_DIRS_ARROW = $(CONAN_LIB_DIR_FLAG)$(CONAN_ROOT_ARROW)/lib CONAN_BIN_DIRS_ARROW = $(CONAN_BIN_DIR_FLAG)$(CONAN_ROOT_ARROW)/bin CONAN_LIBS_ARROW = $(CONAN_LIBS_ARROW_LIBARROW) CONAN_DEFINES_ARROW = $(CONAN_DEFINES_ARROW_LIBARROW) CONAN_REQUIRES_ARROW = $(CONAN_REQUIRES_ARROW_LIBARROW) CONAN_SYSTEM_LIBS_ARROW = $(CONAN_SYSTEM_LIBS_ARROW_LIBARROW) CONAN_COMPONENTS_ARROW = libarrow CONAN_PROPERTY_ARROW_CMAKE_FILE_NAME = Arrow # arrow::libarrow CONAN_INCLUDE_DIRS_ARROW_LIBARROW = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_ARROW)/include CONAN_LIB_DIRS_ARROW_LIBARROW = $(CONAN_LIB_DIR_FLAG)$(CONAN_ROOT_ARROW)/lib CONAN_BIN_DIRS_ARROW_LIBARROW = $(CONAN_BIN_DIR_FLAG)$(CONAN_ROOT_ARROW)/bin CONAN_LIBS_ARROW_LIBARROW = $(CONAN_LIB_FLAG)arrow CONAN_DEFINES_ARROW_LIBARROW = $(CONAN_DEFINE_FLAG)ARROW_STATIC CONAN_REQUIRES_ARROW_LIBARROW = \ mimalloc::mimalloc \ re2::re2 \ xsimd::xsimd CONAN_SYSTEM_LIBS_ARROW_LIBARROW = \ $(CONAN_SYSTEM_LIB_FLAG)pthread \ $(CONAN_SYSTEM_LIB_FLAG)m \ $(CONAN_SYSTEM_LIB_FLAG)dl \ $(CONAN_SYSTEM_LIB_FLAG)rt CONAN_PROPERTY_ARROW_LIBARROW_PKG_CONFIG_NAME = arrow CONAN_PROPERTY_ARROW_LIBARROW_CMAKE_TARGET_NAME = Arrow::arrow_static # mimalloc/1.7.6 (indirect dependency) CONAN_NAME_MIMALLOC = mimalloc CONAN_VERSION_MIMALLOC = 1.7.6 CONAN_REFERENCE_MIMALLOC = mimalloc/1.7.6 CONAN_ROOT_MIMALLOC = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/p CONAN_INCLUDE_DIRS_MIMALLOC = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_MIMALLOC)/include CONAN_LIB_DIRS_MIMALLOC = $(CONAN_LIB_DIR_FLAG)$(CONAN_ROOT_MIMALLOC)/lib CONAN_BIN_DIRS_MIMALLOC = $(CONAN_BIN_DIR_FLAG)$(CONAN_ROOT_MIMALLOC)/bin CONAN_LIBS_MIMALLOC = $(CONAN_LIB_FLAG)mimalloc CONAN_SYSTEM_LIBS_MIMALLOC = \ $(CONAN_SYSTEM_LIB_FLAG)pthread \ $(CONAN_SYSTEM_LIB_FLAG)rt CONAN_PROPERTY_MIMALLOC_CMAKE_FILE_NAME = mimalloc CONAN_PROPERTY_MIMALLOC_CMAKE_TARGET_NAME = mimalloc-static # re2/20230301 (indirect dependency) CONAN_NAME_RE2 = re2 CONAN_VERSION_RE2 = 20230301 CONAN_REFERENCE_RE2 = re2/20230301 CONAN_ROOT_RE2 = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p CONAN_INCLUDE_DIRS_RE2 = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_RE2)/include CONAN_LIB_DIRS_RE2 = $(CONAN_LIB_DIR_FLAG)$(CONAN_ROOT_RE2)/lib CONAN_BIN_DIRS_RE2 = $(CONAN_BIN_DIR_FLAG)$(CONAN_ROOT_RE2)/bin CONAN_LIBS_RE2 = $(CONAN_LIB_FLAG)re2 CONAN_SYSTEM_LIBS_RE2 = \ $(CONAN_SYSTEM_LIB_FLAG)m \ $(CONAN_SYSTEM_LIB_FLAG)pthread CONAN_PROPERTY_RE2_CMAKE_FILE_NAME = re2 CONAN_PROPERTY_RE2_CMAKE_TARGET_NAME = re2::re2 CONAN_PROPERTY_RE2_PKG_CONFIG_NAME = re2 # bshoshany-thread-pool/5.0.0 (indirect dependency) CONAN_NAME_BSHOSHANY_THREAD_POOL = bshoshany-thread-pool CONAN_VERSION_BSHOSHANY_THREAD_POOL = 5.0.0 CONAN_REFERENCE_BSHOSHANY_THREAD_POOL = bshoshany-thread-pool/5.0.0 CONAN_ROOT_BSHOSHANY_THREAD_POOL = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/bshosf4c24b2e229ea/p CONAN_INCLUDE_DIRS_BSHOSHANY_THREAD_POOL = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_BSHOSHANY_THREAD_POOL)/include CONAN_SYSTEM_LIBS_BSHOSHANY_THREAD_POOL = $(CONAN_SYSTEM_LIB_FLAG)pthread # concurrentqueue/1.0.4 (indirect dependency) CONAN_NAME_CONCURRENTQUEUE = concurrentqueue CONAN_VERSION_CONCURRENTQUEUE = 1.0.4 CONAN_REFERENCE_CONCURRENTQUEUE = concurrentqueue/1.0.4 CONAN_ROOT_CONCURRENTQUEUE = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/concu0e8c745f17630/p CONAN_INCLUDE_DIRS_CONCURRENTQUEUE = \ $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_CONCURRENTQUEUE)/include \ $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_CONCURRENTQUEUE)/include/moodycamel CONAN_SYSTEM_LIBS_CONCURRENTQUEUE = $(CONAN_SYSTEM_LIB_FLAG)pthread CONAN_PROPERTY_CONCURRENTQUEUE_CMAKE_FILE_NAME = concurrentqueue CONAN_PROPERTY_CONCURRENTQUEUE_CMAKE_TARGET_NAME = concurrentqueue::concurrentqueue # eigen/3.4.90-unstable+git.2025.08.15 (indirect dependency) CONAN_NAME_EIGEN = eigen CONAN_VERSION_EIGEN = 3.4.90-unstable+git.2025.08.15 CONAN_REFERENCE_EIGEN = eigen/3.4.90-unstable+git.2025.08.15 CONAN_ROOT_EIGEN = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/eigen53c6fe0a2aa26/p CONAN_INCLUDE_DIRS_EIGEN = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_EIGEN)/include CONAN_LIB_DIRS_EIGEN = $(CONAN_LIB_DIR_FLAG)$(CONAN_ROOT_EIGEN)/lib CONAN_BIN_DIRS_EIGEN = $(CONAN_BIN_DIR_FLAG)$(CONAN_ROOT_EIGEN)/bin CONAN_SYSTEM_LIBS_EIGEN = $(CONAN_SYSTEM_LIBS_EIGEN_EIGEN3) CONAN_COMPONENTS_EIGEN = eigen3 CONAN_PROPERTY_EIGEN_CMAKE_FILE_NAME = Eigen3 CONAN_PROPERTY_EIGEN_CMAKE_TARGET_NAME = Eigen3::Eigen CONAN_PROPERTY_EIGEN_PKG_CONFIG_NAME = eigen3 # eigen::eigen3 CONAN_INCLUDE_DIRS_EIGEN_EIGEN3 = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_EIGEN)/include/eigen3 CONAN_SYSTEM_LIBS_EIGEN_EIGEN3 = $(CONAN_SYSTEM_LIB_FLAG)m CONAN_PROPERTY_EIGEN_EIGEN3_CMAKE_TARGET_NAME = Eigen3::Eigen # fast_float/8.0.2 (indirect dependency) CONAN_NAME_FAST_FLOAT = fast_float CONAN_VERSION_FAST_FLOAT = 8.0.2 CONAN_REFERENCE_FAST_FLOAT = fast_float/8.0.2 CONAN_ROOT_FAST_FLOAT = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/fast_d5df19a7e0cf9/p CONAN_INCLUDE_DIRS_FAST_FLOAT = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_FAST_FLOAT)/include CONAN_COMPONENTS_FAST_FLOAT = fastfloat CONAN_PROPERTY_FAST_FLOAT_CMAKE_FILE_NAME = FastFloat CONAN_PROPERTY_FAST_FLOAT_CMAKE_TARGET_NAME = FastFloat::fast_float # fast_float::fastfloat CONAN_INCLUDE_DIRS_FAST_FLOAT_FASTFLOAT = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_FAST_FLOAT)/include CONAN_PROPERTY_FAST_FLOAT_FASTFLOAT_CMAKE_TARGET_NAME = FastFloat::fast_float # highfive/2.10.0 (indirect dependency) CONAN_NAME_HIGHFIVE = highfive CONAN_VERSION_HIGHFIVE = 2.10.0 CONAN_REFERENCE_HIGHFIVE = highfive/2.10.0 CONAN_ROOT_HIGHFIVE = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/highf4cda4c9fda75f/p CONAN_INCLUDE_DIRS_HIGHFIVE = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_HIGHFIVE)/include CONAN_REQUIRES_HIGHFIVE = hdf5::hdf5 CONAN_PROPERTY_HIGHFIVE_CMAKE_FILE_NAME = HighFive CONAN_PROPERTY_HIGHFIVE_CMAKE_TARGET_NAME = HighFive # hdf5/1.14.6 (indirect dependency) CONAN_NAME_HDF5 = hdf5 CONAN_VERSION_HDF5 = 1.14.6 CONAN_REFERENCE_HDF5 = hdf5/1.14.6 CONAN_ROOT_HDF5 = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p CONAN_INCLUDE_DIRS_HDF5 = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_HDF5)/include CONAN_LIB_DIRS_HDF5 = $(CONAN_LIB_DIR_FLAG)$(CONAN_ROOT_HDF5)/lib CONAN_BIN_DIRS_HDF5 = $(CONAN_BIN_DIR_FLAG)$(CONAN_ROOT_HDF5)/bin CONAN_LIBS_HDF5 = $(CONAN_LIBS_HDF5_HDF5_C) CONAN_REQUIRES_HDF5 = $(CONAN_REQUIRES_HDF5_HDF5_C) CONAN_SYSTEM_LIBS_HDF5 = $(CONAN_SYSTEM_LIBS_HDF5_HDF5_C) CONAN_COMPONENTS_HDF5 = hdf5_c CONAN_PROPERTY_HDF5_CMAKE_FIND_MODE = both CONAN_PROPERTY_HDF5_CMAKE_FILE_NAME = HDF5 CONAN_PROPERTY_HDF5_CMAKE_TARGET_NAME = HDF5::HDF5 CONAN_PROPERTY_HDF5_PKG_CONFIG_NAME = hdf5-all-do-not-use CONAN_PROPERTY_HDF5_CMAKE_BUILD_MODULES = ['/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/lib/cmake/conan-official-hdf5-variables.cmake'] # hdf5::hdf5_c CONAN_INCLUDE_DIRS_HDF5_HDF5_C = \ $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_HDF5)/include \ $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_HDF5)/include/hdf5 \ $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_HDF5)/include/hdf5 CONAN_LIB_DIRS_HDF5_HDF5_C = $(CONAN_LIB_DIR_FLAG)$(CONAN_ROOT_HDF5)/lib CONAN_BIN_DIRS_HDF5_HDF5_C = $(CONAN_BIN_DIR_FLAG)$(CONAN_ROOT_HDF5)/bin CONAN_LIBS_HDF5_HDF5_C = $(CONAN_LIB_FLAG)hdf5 CONAN_REQUIRES_HDF5_HDF5_C = zlib::zlib CONAN_SYSTEM_LIBS_HDF5_HDF5_C = \ $(CONAN_SYSTEM_LIB_FLAG)dl \ $(CONAN_SYSTEM_LIB_FLAG)m CONAN_PROPERTY_HDF5_HDF5_C_CMAKE_TARGET_NAME = hdf5::hdf5 CONAN_PROPERTY_HDF5_HDF5_C_PKG_CONFIG_NAME = hdf5 # zlib/1.3.1 (indirect dependency) CONAN_NAME_ZLIB = zlib CONAN_VERSION_ZLIB = 1.3.1 CONAN_REFERENCE_ZLIB = zlib/1.3.1 CONAN_ROOT_ZLIB = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/p CONAN_INCLUDE_DIRS_ZLIB = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_ZLIB)/include CONAN_LIB_DIRS_ZLIB = $(CONAN_LIB_DIR_FLAG)$(CONAN_ROOT_ZLIB)/lib CONAN_BIN_DIRS_ZLIB = $(CONAN_BIN_DIR_FLAG)$(CONAN_ROOT_ZLIB)/bin CONAN_LIBS_ZLIB = $(CONAN_LIB_FLAG)z CONAN_PROPERTY_ZLIB_CMAKE_FIND_MODE = both CONAN_PROPERTY_ZLIB_CMAKE_FILE_NAME = ZLIB CONAN_PROPERTY_ZLIB_CMAKE_TARGET_NAME = ZLIB::ZLIB CONAN_PROPERTY_ZLIB_PKG_CONFIG_NAME = zlib # libdeflate/1.23 (indirect dependency) CONAN_NAME_LIBDEFLATE = libdeflate CONAN_VERSION_LIBDEFLATE = 1.23 CONAN_REFERENCE_LIBDEFLATE = libdeflate/1.23 CONAN_ROOT_LIBDEFLATE = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/p CONAN_INCLUDE_DIRS_LIBDEFLATE = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_LIBDEFLATE)/include CONAN_LIB_DIRS_LIBDEFLATE = $(CONAN_LIB_DIR_FLAG)$(CONAN_ROOT_LIBDEFLATE)/lib CONAN_BIN_DIRS_LIBDEFLATE = $(CONAN_BIN_DIR_FLAG)$(CONAN_ROOT_LIBDEFLATE)/bin CONAN_LIBS_LIBDEFLATE = $(CONAN_LIBS_LIBDEFLATE__LIBDEFLATE) CONAN_COMPONENTS_LIBDEFLATE = _libdeflate CONAN_PROPERTY_LIBDEFLATE_CMAKE_FILE_NAME = libdeflate CONAN_PROPERTY_LIBDEFLATE_CMAKE_TARGET_NAME = libdeflate::libdeflate_static CONAN_PROPERTY_LIBDEFLATE_CMAKE_TARGET_ALIASES = ['libdeflate::libdeflate'] CONAN_PROPERTY_LIBDEFLATE_PKG_CONFIG_NAME = libdeflate # libdeflate::_libdeflate CONAN_INCLUDE_DIRS_LIBDEFLATE__LIBDEFLATE = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_LIBDEFLATE)/include CONAN_LIB_DIRS_LIBDEFLATE__LIBDEFLATE = $(CONAN_LIB_DIR_FLAG)$(CONAN_ROOT_LIBDEFLATE)/lib CONAN_BIN_DIRS_LIBDEFLATE__LIBDEFLATE = $(CONAN_BIN_DIR_FLAG)$(CONAN_ROOT_LIBDEFLATE)/bin CONAN_LIBS_LIBDEFLATE__LIBDEFLATE = $(CONAN_LIB_FLAG)deflate CONAN_PROPERTY_LIBDEFLATE__LIBDEFLATE_CMAKE_TARGET_NAME = libdeflate::libdeflate_static CONAN_PROPERTY_LIBDEFLATE__LIBDEFLATE_PKG_CONFIG_NAME = libdeflate # parallel-hashmap/2.0.0 (indirect dependency) CONAN_NAME_PARALLEL_HASHMAP = parallel-hashmap CONAN_VERSION_PARALLEL_HASHMAP = 2.0.0 CONAN_REFERENCE_PARALLEL_HASHMAP = parallel-hashmap/2.0.0 CONAN_ROOT_PARALLEL_HASHMAP = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/paral39ec75baf77f3/p CONAN_INCLUDE_DIRS_PARALLEL_HASHMAP = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_PARALLEL_HASHMAP)/include CONAN_PROPERTY_PARALLEL_HASHMAP_CMAKE_FILE_NAME = phmap CONAN_PROPERTY_PARALLEL_HASHMAP_CMAKE_TARGET_NAME = phmap # readerwriterqueue/1.0.6 (indirect dependency) CONAN_NAME_READERWRITERQUEUE = readerwriterqueue CONAN_VERSION_READERWRITERQUEUE = 1.0.6 CONAN_REFERENCE_READERWRITERQUEUE = readerwriterqueue/1.0.6 CONAN_ROOT_READERWRITERQUEUE = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/reade50dacf22d86c8/p CONAN_INCLUDE_DIRS_READERWRITERQUEUE = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_READERWRITERQUEUE)/include CONAN_SYSTEM_LIBS_READERWRITERQUEUE = $(CONAN_SYSTEM_LIB_FLAG)pthread # span-lite/0.11.0 (indirect dependency) CONAN_NAME_SPAN_LITE = span-lite CONAN_VERSION_SPAN_LITE = 0.11.0 CONAN_REFERENCE_SPAN_LITE = span-lite/0.11.0 CONAN_ROOT_SPAN_LITE = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/span-484170b3e63a0/p CONAN_INCLUDE_DIRS_SPAN_LITE = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_SPAN_LITE)/include CONAN_BIN_DIRS_SPAN_LITE = $(CONAN_BIN_DIRS_SPAN_LITE_SPANLITE) CONAN_COMPONENTS_SPAN_LITE = spanlite CONAN_PROPERTY_SPAN_LITE_CMAKE_FILE_NAME = span-lite CONAN_PROPERTY_SPAN_LITE_CMAKE_TARGET_NAME = nonstd::span-lite # span-lite::spanlite CONAN_INCLUDE_DIRS_SPAN_LITE_SPANLITE = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_SPAN_LITE)/include CONAN_BIN_DIRS_SPAN_LITE_SPANLITE = $(CONAN_BIN_DIR_FLAG)$(CONAN_ROOT_SPAN_LITE)/bin CONAN_PROPERTY_SPAN_LITE_SPANLITE_CMAKE_TARGET_NAME = nonstd::span-lite # spdlog/1.15.3 (indirect dependency) CONAN_NAME_SPDLOG = spdlog CONAN_VERSION_SPDLOG = 1.15.3 CONAN_REFERENCE_SPDLOG = spdlog/1.15.3 CONAN_ROOT_SPDLOG = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/spdlo4ef47a933caac/p CONAN_INCLUDE_DIRS_SPDLOG = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_SPDLOG)/include CONAN_LIB_DIRS_SPDLOG = $(CONAN_LIB_DIR_FLAG)$(CONAN_ROOT_SPDLOG)/lib CONAN_BIN_DIRS_SPDLOG = $(CONAN_BIN_DIR_FLAG)$(CONAN_ROOT_SPDLOG)/bin CONAN_DEFINES_SPDLOG = $(CONAN_DEFINES_SPDLOG_LIBSPDLOG) CONAN_REQUIRES_SPDLOG = $(CONAN_REQUIRES_SPDLOG_LIBSPDLOG) CONAN_SYSTEM_LIBS_SPDLOG = $(CONAN_SYSTEM_LIBS_SPDLOG_LIBSPDLOG) CONAN_COMPONENTS_SPDLOG = libspdlog CONAN_PROPERTY_SPDLOG_CMAKE_FILE_NAME = spdlog CONAN_PROPERTY_SPDLOG_CMAKE_TARGET_NAME = spdlog::spdlog_header_only CONAN_PROPERTY_SPDLOG_PKG_CONFIG_NAME = spdlog # spdlog::libspdlog CONAN_INCLUDE_DIRS_SPDLOG_LIBSPDLOG = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_SPDLOG)/include CONAN_BIN_DIRS_SPDLOG_LIBSPDLOG = $(CONAN_BIN_DIR_FLAG)$(CONAN_ROOT_SPDLOG)/bin CONAN_DEFINES_SPDLOG_LIBSPDLOG = $(CONAN_DEFINE_FLAG)SPDLOG_FMT_EXTERNAL CONAN_REQUIRES_SPDLOG_LIBSPDLOG = fmt::fmt CONAN_SYSTEM_LIBS_SPDLOG_LIBSPDLOG = $(CONAN_SYSTEM_LIB_FLAG)pthread CONAN_PROPERTY_SPDLOG_LIBSPDLOG_CMAKE_TARGET_NAME = spdlog::spdlog_header_only # fmt/11.2.0 (indirect dependency) CONAN_NAME_FMT = fmt CONAN_VERSION_FMT = 11.2.0 CONAN_REFERENCE_FMT = fmt/11.2.0 CONAN_ROOT_FMT = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/fmt56da882bfd5e6/p CONAN_INCLUDE_DIRS_FMT = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_FMT)/include CONAN_LIB_DIRS_FMT = $(CONAN_LIB_DIR_FLAG)$(CONAN_ROOT_FMT)/lib CONAN_BIN_DIRS_FMT = $(CONAN_BIN_DIR_FLAG)$(CONAN_ROOT_FMT)/bin CONAN_DEFINES_FMT = $(CONAN_DEFINES_FMT__FMT) CONAN_COMPONENTS_FMT = _fmt CONAN_PROPERTY_FMT_CMAKE_FILE_NAME = fmt CONAN_PROPERTY_FMT_CMAKE_TARGET_NAME = fmt::fmt-header-only CONAN_PROPERTY_FMT_CMAKE_CONFIG_VERSION_COMPAT = AnyNewerVersion CONAN_PROPERTY_FMT_PKG_CONFIG_NAME = fmt # fmt::_fmt CONAN_INCLUDE_DIRS_FMT__FMT = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_FMT)/include CONAN_DEFINES_FMT__FMT = $(CONAN_DEFINE_FLAG)FMT_HEADER_ONLY=1 CONAN_PROPERTY_FMT__FMT_CMAKE_TARGET_NAME = fmt::fmt-header-only # zstd/1.5.7 (indirect dependency) CONAN_NAME_ZSTD = zstd CONAN_VERSION_ZSTD = 1.5.7 CONAN_REFERENCE_ZSTD = zstd/1.5.7 CONAN_ROOT_ZSTD = /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/p CONAN_INCLUDE_DIRS_ZSTD = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_ZSTD)/include CONAN_LIB_DIRS_ZSTD = $(CONAN_LIB_DIR_FLAG)$(CONAN_ROOT_ZSTD)/lib CONAN_BIN_DIRS_ZSTD = $(CONAN_BIN_DIR_FLAG)$(CONAN_ROOT_ZSTD)/bin CONAN_LIBS_ZSTD = $(CONAN_LIBS_ZSTD_ZSTDLIB) CONAN_SYSTEM_LIBS_ZSTD = $(CONAN_SYSTEM_LIBS_ZSTD_ZSTDLIB) CONAN_COMPONENTS_ZSTD = zstdlib CONAN_PROPERTY_ZSTD_CMAKE_FILE_NAME = zstd CONAN_PROPERTY_ZSTD_CMAKE_TARGET_NAME = zstd::libzstd_static CONAN_PROPERTY_ZSTD_PKG_CONFIG_NAME = libzstd # zstd::zstdlib CONAN_INCLUDE_DIRS_ZSTD_ZSTDLIB = $(CONAN_INCLUDE_DIR_FLAG)$(CONAN_ROOT_ZSTD)/include CONAN_LIB_DIRS_ZSTD_ZSTDLIB = $(CONAN_LIB_DIR_FLAG)$(CONAN_ROOT_ZSTD)/lib CONAN_BIN_DIRS_ZSTD_ZSTDLIB = $(CONAN_BIN_DIR_FLAG)$(CONAN_ROOT_ZSTD)/bin CONAN_LIBS_ZSTD_ZSTDLIB = $(CONAN_LIB_FLAG)zstd CONAN_SYSTEM_LIBS_ZSTD_ZSTDLIB = $(CONAN_SYSTEM_LIB_FLAG)pthread CONAN_PROPERTY_ZSTD_ZSTDLIB_CMAKE_TARGET_NAME = zstd::libzstd_static CONAN_PROPERTY_ZSTD_ZSTDLIB_PKG_CONFIG_NAME = libzstd # Aggregated global variables CONAN_INCLUDE_DIRS = \ $(CONAN_INCLUDE_DIRS_HICTK) \ $(CONAN_INCLUDE_DIRS_ARROW) \ $(CONAN_INCLUDE_DIRS_MIMALLOC) \ $(CONAN_INCLUDE_DIRS_RE2) \ $(CONAN_INCLUDE_DIRS_BSHOSHANY_THREAD_POOL) \ $(CONAN_INCLUDE_DIRS_CONCURRENTQUEUE) \ $(CONAN_INCLUDE_DIRS_EIGEN) \ $(CONAN_INCLUDE_DIRS_FAST_FLOAT) \ $(CONAN_INCLUDE_DIRS_HIGHFIVE) \ $(CONAN_INCLUDE_DIRS_HDF5) \ $(CONAN_INCLUDE_DIRS_ZLIB) \ $(CONAN_INCLUDE_DIRS_LIBDEFLATE) \ $(CONAN_INCLUDE_DIRS_PARALLEL_HASHMAP) \ $(CONAN_INCLUDE_DIRS_READERWRITERQUEUE) \ $(CONAN_INCLUDE_DIRS_SPAN_LITE) \ $(CONAN_INCLUDE_DIRS_SPDLOG) \ $(CONAN_INCLUDE_DIRS_FMT) \ $(CONAN_INCLUDE_DIRS_ZSTD) CONAN_LIB_DIRS = \ $(CONAN_LIB_DIRS_ARROW) \ $(CONAN_LIB_DIRS_MIMALLOC) \ $(CONAN_LIB_DIRS_RE2) \ $(CONAN_LIB_DIRS_EIGEN) \ $(CONAN_LIB_DIRS_HDF5) \ $(CONAN_LIB_DIRS_ZLIB) \ $(CONAN_LIB_DIRS_LIBDEFLATE) \ $(CONAN_LIB_DIRS_SPDLOG) \ $(CONAN_LIB_DIRS_FMT) \ $(CONAN_LIB_DIRS_ZSTD) CONAN_BIN_DIRS = \ $(CONAN_BIN_DIRS_ARROW) \ $(CONAN_BIN_DIRS_MIMALLOC) \ $(CONAN_BIN_DIRS_RE2) \ $(CONAN_BIN_DIRS_EIGEN) \ $(CONAN_BIN_DIRS_HDF5) \ $(CONAN_BIN_DIRS_ZLIB) \ $(CONAN_BIN_DIRS_LIBDEFLATE) \ $(CONAN_BIN_DIRS_SPAN_LITE) \ $(CONAN_BIN_DIRS_SPDLOG) \ $(CONAN_BIN_DIRS_FMT) \ $(CONAN_BIN_DIRS_ZSTD) CONAN_LIBS = \ $(CONAN_LIBS_ARROW) \ $(CONAN_LIBS_MIMALLOC) \ $(CONAN_LIBS_RE2) \ $(CONAN_LIBS_HDF5) \ $(CONAN_LIBS_ZLIB) \ $(CONAN_LIBS_LIBDEFLATE) \ $(CONAN_LIBS_ZSTD) CONAN_DEFINES = \ $(CONAN_DEFINES_HICTK) \ $(CONAN_DEFINES_ARROW) \ $(CONAN_DEFINES_SPDLOG) \ $(CONAN_DEFINES_FMT) CONAN_REQUIRES = \ $(CONAN_REQUIRES_ARROW) \ $(CONAN_REQUIRES_HIGHFIVE) \ $(CONAN_REQUIRES_HDF5) \ $(CONAN_REQUIRES_SPDLOG) CONAN_SYSTEM_LIBS = \ $(CONAN_SYSTEM_LIBS_ARROW) \ $(CONAN_SYSTEM_LIBS_MIMALLOC) \ $(CONAN_SYSTEM_LIBS_RE2) \ $(CONAN_SYSTEM_LIBS_BSHOSHANY_THREAD_POOL) \ $(CONAN_SYSTEM_LIBS_CONCURRENTQUEUE) \ $(CONAN_SYSTEM_LIBS_EIGEN) \ $(CONAN_SYSTEM_LIBS_HDF5) \ $(CONAN_SYSTEM_LIBS_READERWRITERQUEUE) \ $(CONAN_SYSTEM_LIBS_SPDLOG) \ $(CONAN_SYSTEM_LIBS_ZSTD) ### END OF conandeps.mk CXX_STD = CXX17 PKG_CPPFLAGS += $(addprefix -isystem ,$(CONAN_INCLUDE_DIRS)) PKG_CPPFLAGS += $(addprefix -D,$(CONAN_DEFINES)) PKG_CPPFLAGS += -I/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include PKG_LIBS += $(addprefix -L ,$(CONAN_LIB_DIRS)) PKG_LIBS += $(addprefix -l,$(CONAN_LIBS)) PKG_LIBS += $(addprefix -l,$(CONAN_SYSTEM_LIBS)) PKG_CPPFLAGS += $(addprefix -isystem ,$(CONAN_INCLUDE_DIRS_HDF5_HDF5_C)) PKG_LIBS += -Wl,--strip-debug ### END Makevars ### BEGIN cleanup #!/bin/sh set -x rm -f "$0" "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/src/Makevars" find "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/src" -type f -name '*.o' -delete -print find "/srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/src" -type f -name '*.so' -delete -print ### END cleanup + rm -rf /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp//install.sh /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp//uv-install /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp//python-install /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp//venv/ + cd /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR ** libs using C++ compiler: ‘Debian clang version 19.1.7 (3+b2)’ using C++17 clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/bshosf4c24b2e229ea/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/concu0e8c745f17630/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/concu0e8c745f17630/p/include/moodycamel -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/eigen53c6fe0a2aa26/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/fast_d5df19a7e0cf9/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/highf4cda4c9fda75f/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/paral39ec75baf77f3/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/reade50dacf22d86c8/p/include -isystem 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-I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -Wdeprecated-literal-operator -c hictkr_singlecell_file.cpp -o hictkr_singlecell_file.o clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hictk1a52cee6e5706/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/bshosf4c24b2e229ea/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/concu0e8c745f17630/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/concu0e8c745f17630/p/include/moodycamel -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/eigen53c6fe0a2aa26/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/fast_d5df19a7e0cf9/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/highf4cda4c9fda75f/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/paral39ec75baf77f3/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/reade50dacf22d86c8/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/span-484170b3e63a0/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/spdlo4ef47a933caac/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/fmt56da882bfd5e6/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/p/include -DHICTK_WITH_ARROW -DHICTK_WITH_EIGEN -DARROW_STATIC -DSPDLOG_FMT_EXTERNAL -DFMT_HEADER_ONLY=1 -I/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5 -isystem /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/include/hdf5 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -Wno-missing-template-arg-list-after-template-kw -Wdeprecated-literal-operator -c hictkr_validation.cpp -o hictkr_validation.o clang++-19 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o hictkR.so RcppExports.o hictkr.o hictkr_file.o hictkr_multi_resolution_file.o hictkr_singlecell_file.o hictkr_validation.o -L /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/arrow7bb867539658b/p/lib -L /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/mimalb4b8b44b5ce17/p/lib -L /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/re270fba7a1c5666/p/lib -L /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/eigen53c6fe0a2aa26/p/lib -L /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/hdf5a795419b9b999/p/lib -L /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zlibbd36e231dc6ff/p/lib -L /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/libdea48718a399686/p/lib -L /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/spdlo4ef47a933caac/p/lib -L /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/fmt56da882bfd5e6/p/lib -L /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00_pkg_src/hictkR/build/tmp/.conan2/p/b/zstd2dcbfd6e3304b/p/lib -larrow -lmimalloc -lre2 -lhdf5 -lz -ldeflate -lzstd -lpthread -lm -ldl -lrt -lpthread -lrt -lm -lpthread -lpthread -lpthread -lm -ldl -lm -lpthread -lpthread -lpthread -Wl,--strip-debug -L/home/hornik/tmp/R/lib -lR installing to /srv/hornik/tmp/CRAN_pretest/hictkR.Rcheck/00LOCK-hictkR/00new/hictkR/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (hictkR)