R Under development (unstable) (2024-02-02 r85855 ucrt) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(testthat) > library(flocker) > > test_check("flocker") Formatting data for a single-season occupancy model. For details, see make_flocker_data_static. All warnings and error messages should be interpreted in the context of make_flocker_data_static Compiling Stan program... Start sampling SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.000281 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 2.81 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 8 [ 12%] (Warmup) Chain 1: Iteration: 2 / 8 [ 25%] (Warmup) Chain 1: Iteration: 3 / 8 [ 37%] (Warmup) Chain 1: Iteration: 4 / 8 [ 50%] (Warmup) Chain 1: Iteration: 5 / 8 [ 62%] (Sampling) Chain 1: Iteration: 6 / 8 [ 75%] (Sampling) Chain 1: Iteration: 7 / 8 [ 87%] (Sampling) Chain 1: Iteration: 8 / 8 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.003 seconds (Warm-up) Chain 1: 0.005 seconds (Sampling) Chain 1: 0.008 seconds (Total) Chain 1: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 0.000154 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 1.54 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 8 [ 12%] (Warmup) Chain 2: Iteration: 2 / 8 [ 25%] (Warmup) Chain 2: Iteration: 3 / 8 [ 37%] (Warmup) Chain 2: Iteration: 4 / 8 [ 50%] (Warmup) Chain 2: Iteration: 5 / 8 [ 62%] (Sampling) Chain 2: Iteration: 6 / 8 [ 75%] (Sampling) Chain 2: Iteration: 7 / 8 [ 87%] (Sampling) Chain 2: Iteration: 8 / 8 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.003 seconds (Warm-up) Chain 2: 0.007 seconds (Sampling) Chain 2: 0.01 seconds (Total) Chain 2: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 3). Chain 3: Chain 3: Gradient evaluation took 0.000154 seconds Chain 3: 1000 transitions using 10 leapfrog steps per transition would take 1.54 seconds. Chain 3: Adjust your expectations accordingly! Chain 3: Chain 3: Chain 3: WARNING: No variance estimation is Chain 3: performed for num_warmup < 20 Chain 3: Chain 3: Iteration: 1 / 8 [ 12%] (Warmup) Chain 3: Iteration: 2 / 8 [ 25%] (Warmup) Chain 3: Iteration: 3 / 8 [ 37%] (Warmup) Chain 3: Iteration: 4 / 8 [ 50%] (Warmup) Chain 3: Iteration: 5 / 8 [ 62%] (Sampling) Chain 3: Iteration: 6 / 8 [ 75%] (Sampling) Chain 3: Iteration: 7 / 8 [ 87%] (Sampling) Chain 3: Iteration: 8 / 8 [100%] (Sampling) Chain 3: Chain 3: Elapsed Time: 0.011 seconds (Warm-up) Chain 3: 0.009 seconds (Sampling) Chain 3: 0.02 seconds (Total) Chain 3: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 4). Chain 4: Chain 4: Gradient evaluation took 0.000153 seconds Chain 4: 1000 transitions using 10 leapfrog steps per transition would take 1.53 seconds. Chain 4: Adjust your expectations accordingly! Chain 4: Chain 4: Chain 4: WARNING: No variance estimation is Chain 4: performed for num_warmup < 20 Chain 4: Chain 4: Iteration: 1 / 8 [ 12%] (Warmup) Chain 4: Iteration: 2 / 8 [ 25%] (Warmup) Chain 4: Iteration: 3 / 8 [ 37%] (Warmup) Chain 4: Iteration: 4 / 8 [ 50%] (Warmup) Chain 4: Iteration: 5 / 8 [ 62%] (Sampling) Chain 4: Iteration: 6 / 8 [ 75%] (Sampling) Chain 4: Iteration: 7 / 8 [ 87%] (Sampling) Chain 4: Iteration: 8 / 8 [100%] (Sampling) Chain 4: Chain 4: Elapsed Time: 0.003 seconds (Warm-up) Chain 4: 0.003 seconds (Sampling) Chain 4: 0.006 seconds (Total) Chain 4: Formatting data for a single-season multispecies occupancy model with data augmentation for never-observed species. For details, see make_flocker_data_augmented. 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Compiling Stan program... Start sampling SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.001979 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 19.79 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 8 [ 12%] (Warmup) Chain 1: Iteration: 2 / 8 [ 25%] (Warmup) Chain 1: Iteration: 3 / 8 [ 37%] (Warmup) Chain 1: Iteration: 4 / 8 [ 50%] (Warmup) Chain 1: Iteration: 5 / 8 [ 62%] (Sampling) Chain 1: Iteration: 6 / 8 [ 75%] (Sampling) Chain 1: Iteration: 7 / 8 [ 87%] (Sampling) Chain 1: Iteration: 8 / 8 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.028 seconds (Warm-up) Chain 1: 0.018 seconds (Sampling) Chain 1: 0.046 seconds (Total) Chain 1: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 0.001269 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 12.69 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 8 [ 12%] (Warmup) Chain 2: Iteration: 2 / 8 [ 25%] (Warmup) Chain 2: Iteration: 3 / 8 [ 37%] (Warmup) Chain 2: Iteration: 4 / 8 [ 50%] (Warmup) Chain 2: Iteration: 5 / 8 [ 62%] (Sampling) Chain 2: Iteration: 6 / 8 [ 75%] (Sampling) Chain 2: Iteration: 7 / 8 [ 87%] (Sampling) Chain 2: Iteration: 8 / 8 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.014 seconds (Warm-up) Chain 2: 0.021 seconds (Sampling) Chain 2: 0.035 seconds (Total) Chain 2: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 3). Chain 3: Chain 3: Gradient evaluation took 0.001262 seconds Chain 3: 1000 transitions using 10 leapfrog steps per transition would take 12.62 seconds. Chain 3: Adjust your expectations accordingly! Chain 3: Chain 3: Chain 3: WARNING: No variance estimation is Chain 3: performed for num_warmup < 20 Chain 3: Chain 3: Iteration: 1 / 8 [ 12%] (Warmup) Chain 3: Iteration: 2 / 8 [ 25%] (Warmup) Chain 3: Iteration: 3 / 8 [ 37%] (Warmup) Chain 3: Iteration: 4 / 8 [ 50%] (Warmup) Chain 3: Iteration: 5 / 8 [ 62%] (Sampling) Chain 3: Iteration: 6 / 8 [ 75%] (Sampling) Chain 3: Iteration: 7 / 8 [ 87%] (Sampling) Chain 3: Iteration: 8 / 8 [100%] (Sampling) Chain 3: Chain 3: Elapsed Time: 0.053 seconds (Warm-up) Chain 3: 0.019 seconds (Sampling) Chain 3: 0.072 seconds (Total) Chain 3: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 4). Chain 4: Chain 4: Gradient evaluation took 0.001303 seconds Chain 4: 1000 transitions using 10 leapfrog steps per transition would take 13.03 seconds. Chain 4: Adjust your expectations accordingly! Chain 4: Chain 4: Chain 4: WARNING: No variance estimation is Chain 4: performed for num_warmup < 20 Chain 4: Chain 4: Iteration: 1 / 8 [ 12%] (Warmup) Chain 4: Iteration: 2 / 8 [ 25%] (Warmup) Chain 4: Iteration: 3 / 8 [ 37%] (Warmup) Chain 4: Iteration: 4 / 8 [ 50%] (Warmup) Chain 4: Iteration: 5 / 8 [ 62%] (Sampling) Chain 4: Iteration: 6 / 8 [ 75%] (Sampling) Chain 4: Iteration: 7 / 8 [ 87%] (Sampling) Chain 4: Iteration: 8 / 8 [100%] (Sampling) Chain 4: Chain 4: Elapsed Time: 0.176 seconds (Warm-up) Chain 4: 0.15 seconds (Sampling) Chain 4: 0.326 seconds (Total) Chain 4: Formatting data for a multi-season occupancy model. For details, see make_flocker_data_dynamic. 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|===================================================================== | 99% | |======================================================================| 100% Compiling Stan program... Start sampling SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.000498 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 4.98 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 8 [ 12%] (Warmup) Chain 1: Iteration: 2 / 8 [ 25%] (Warmup) Chain 1: Iteration: 3 / 8 [ 37%] (Warmup) Chain 1: Iteration: 4 / 8 [ 50%] (Warmup) Chain 1: Iteration: 5 / 8 [ 62%] (Sampling) Chain 1: Iteration: 6 / 8 [ 75%] (Sampling) Chain 1: Iteration: 7 / 8 [ 87%] (Sampling) Chain 1: Iteration: 8 / 8 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.01 seconds (Warm-up) Chain 1: 0.005 seconds (Sampling) Chain 1: 0.015 seconds (Total) Chain 1: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 0.000389 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 3.89 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 8 [ 12%] (Warmup) Chain 2: Iteration: 2 / 8 [ 25%] (Warmup) Chain 2: Iteration: 3 / 8 [ 37%] (Warmup) Chain 2: Iteration: 4 / 8 [ 50%] (Warmup) Chain 2: Iteration: 5 / 8 [ 62%] (Sampling) Chain 2: Iteration: 6 / 8 [ 75%] (Sampling) Chain 2: Iteration: 7 / 8 [ 87%] (Sampling) Chain 2: Iteration: 8 / 8 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.007 seconds (Warm-up) Chain 2: 0.004 seconds (Sampling) Chain 2: 0.011 seconds (Total) Chain 2: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 3). Chain 3: Chain 3: Gradient evaluation took 0.000387 seconds Chain 3: 1000 transitions using 10 leapfrog steps per transition would take 3.87 seconds. Chain 3: Adjust your expectations accordingly! Chain 3: Chain 3: Chain 3: WARNING: No variance estimation is Chain 3: performed for num_warmup < 20 Chain 3: Chain 3: Iteration: 1 / 8 [ 12%] (Warmup) Chain 3: Iteration: 2 / 8 [ 25%] (Warmup) Chain 3: Iteration: 3 / 8 [ 37%] (Warmup) Chain 3: Iteration: 4 / 8 [ 50%] (Warmup) Chain 3: Iteration: 5 / 8 [ 62%] (Sampling) Chain 3: Iteration: 6 / 8 [ 75%] (Sampling) Chain 3: Iteration: 7 / 8 [ 87%] (Sampling) Chain 3: Iteration: 8 / 8 [100%] (Sampling) Chain 3: Chain 3: Elapsed Time: 0.009 seconds (Warm-up) Chain 3: 0.004 seconds (Sampling) Chain 3: 0.013 seconds (Total) Chain 3: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 4). Chain 4: Chain 4: Gradient evaluation took 0.000391 seconds Chain 4: 1000 transitions using 10 leapfrog steps per transition would take 3.91 seconds. Chain 4: Adjust your expectations accordingly! Chain 4: Chain 4: Chain 4: WARNING: No variance estimation is Chain 4: performed for num_warmup < 20 Chain 4: Chain 4: Iteration: 1 / 8 [ 12%] (Warmup) Chain 4: Iteration: 2 / 8 [ 25%] (Warmup) Chain 4: Iteration: 3 / 8 [ 37%] (Warmup) Chain 4: Iteration: 4 / 8 [ 50%] (Warmup) Chain 4: Iteration: 5 / 8 [ 62%] (Sampling) Chain 4: Iteration: 6 / 8 [ 75%] (Sampling) Chain 4: Iteration: 7 / 8 [ 87%] (Sampling) Chain 4: Iteration: 8 / 8 [100%] (Sampling) Chain 4: Chain 4: Elapsed Time: 0.007 seconds (Warm-up) Chain 4: 0.006 seconds (Sampling) Chain 4: 0.013 seconds (Total) Chain 4: Formatting data for a multi-season occupancy model. For details, see make_flocker_data_dynamic. 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Start sampling SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.000476 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 4.76 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 8 [ 12%] (Warmup) Chain 1: Iteration: 2 / 8 [ 25%] (Warmup) Chain 1: Iteration: 3 / 8 [ 37%] (Warmup) Chain 1: Iteration: 4 / 8 [ 50%] (Warmup) Chain 1: Iteration: 5 / 8 [ 62%] (Sampling) Chain 1: Iteration: 6 / 8 [ 75%] (Sampling) Chain 1: Iteration: 7 / 8 [ 87%] (Sampling) Chain 1: Iteration: 8 / 8 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.005 seconds (Warm-up) Chain 1: 0.005 seconds (Sampling) Chain 1: 0.01 seconds (Total) Chain 1: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 0.000372 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 3.72 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 8 [ 12%] (Warmup) Chain 2: Iteration: 2 / 8 [ 25%] (Warmup) Chain 2: Iteration: 3 / 8 [ 37%] (Warmup) Chain 2: Iteration: 4 / 8 [ 50%] (Warmup) Chain 2: Iteration: 5 / 8 [ 62%] (Sampling) Chain 2: Iteration: 6 / 8 [ 75%] (Sampling) Chain 2: Iteration: 7 / 8 [ 87%] (Sampling) Chain 2: Iteration: 8 / 8 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.004 seconds (Warm-up) Chain 2: 0.004 seconds (Sampling) Chain 2: 0.008 seconds (Total) Chain 2: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 3). Chain 3: Chain 3: Gradient evaluation took 0.000366 seconds Chain 3: 1000 transitions using 10 leapfrog steps per transition would take 3.66 seconds. Chain 3: Adjust your expectations accordingly! Chain 3: Chain 3: Chain 3: WARNING: No variance estimation is Chain 3: performed for num_warmup < 20 Chain 3: Chain 3: Iteration: 1 / 8 [ 12%] (Warmup) Chain 3: Iteration: 2 / 8 [ 25%] (Warmup) Chain 3: Iteration: 3 / 8 [ 37%] (Warmup) Chain 3: Iteration: 4 / 8 [ 50%] (Warmup) Chain 3: Iteration: 5 / 8 [ 62%] (Sampling) Chain 3: Iteration: 6 / 8 [ 75%] (Sampling) Chain 3: Iteration: 7 / 8 [ 87%] (Sampling) Chain 3: Iteration: 8 / 8 [100%] (Sampling) Chain 3: Chain 3: Elapsed Time: 0.004 seconds (Warm-up) Chain 3: 0.004 seconds (Sampling) Chain 3: 0.008 seconds (Total) Chain 3: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 4). Chain 4: Chain 4: Gradient evaluation took 0.000378 seconds Chain 4: 1000 transitions using 10 leapfrog steps per transition would take 3.78 seconds. Chain 4: Adjust your expectations accordingly! Chain 4: Chain 4: Chain 4: WARNING: No variance estimation is Chain 4: performed for num_warmup < 20 Chain 4: Chain 4: Iteration: 1 / 8 [ 12%] (Warmup) Chain 4: Iteration: 2 / 8 [ 25%] (Warmup) Chain 4: Iteration: 3 / 8 [ 37%] (Warmup) Chain 4: Iteration: 4 / 8 [ 50%] (Warmup) Chain 4: Iteration: 5 / 8 [ 62%] (Sampling) Chain 4: Iteration: 6 / 8 [ 75%] (Sampling) Chain 4: Iteration: 7 / 8 [ 87%] (Sampling) Chain 4: Iteration: 8 / 8 [100%] (Sampling) Chain 4: Chain 4: Elapsed Time: 0.01 seconds (Warm-up) Chain 4: 0.009 seconds (Sampling) Chain 4: 0.019 seconds (Total) Chain 4: Formatting data for a multi-season occupancy model. For details, see make_flocker_data_dynamic. 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|===================================================================== | 99% | |======================================================================| 100% Compiling Stan program... Start sampling SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.000507 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 5.07 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 8 [ 12%] (Warmup) Chain 1: Iteration: 2 / 8 [ 25%] (Warmup) Chain 1: Iteration: 3 / 8 [ 37%] (Warmup) Chain 1: Iteration: 4 / 8 [ 50%] (Warmup) Chain 1: Iteration: 5 / 8 [ 62%] (Sampling) Chain 1: Iteration: 6 / 8 [ 75%] (Sampling) Chain 1: Iteration: 7 / 8 [ 87%] (Sampling) Chain 1: Iteration: 8 / 8 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.006 seconds (Warm-up) Chain 1: 0.007 seconds (Sampling) Chain 1: 0.013 seconds (Total) Chain 1: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 0.000395 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 3.95 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 8 [ 12%] (Warmup) Chain 2: Iteration: 2 / 8 [ 25%] (Warmup) Chain 2: Iteration: 3 / 8 [ 37%] (Warmup) Chain 2: Iteration: 4 / 8 [ 50%] (Warmup) Chain 2: Iteration: 5 / 8 [ 62%] (Sampling) Chain 2: Iteration: 6 / 8 [ 75%] (Sampling) Chain 2: Iteration: 7 / 8 [ 87%] (Sampling) Chain 2: Iteration: 8 / 8 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.006 seconds (Warm-up) Chain 2: 0.005 seconds (Sampling) Chain 2: 0.011 seconds (Total) Chain 2: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 3). Chain 3: Chain 3: Gradient evaluation took 0.0004 seconds Chain 3: 1000 transitions using 10 leapfrog steps per transition would take 4 seconds. Chain 3: Adjust your expectations accordingly! Chain 3: Chain 3: Chain 3: WARNING: No variance estimation is Chain 3: performed for num_warmup < 20 Chain 3: Chain 3: Iteration: 1 / 8 [ 12%] (Warmup) Chain 3: Iteration: 2 / 8 [ 25%] (Warmup) Chain 3: Iteration: 3 / 8 [ 37%] (Warmup) Chain 3: Iteration: 4 / 8 [ 50%] (Warmup) Chain 3: Iteration: 5 / 8 [ 62%] (Sampling) Chain 3: Iteration: 6 / 8 [ 75%] (Sampling) Chain 3: Iteration: 7 / 8 [ 87%] (Sampling) Chain 3: Iteration: 8 / 8 [100%] (Sampling) Chain 3: Chain 3: Elapsed Time: 0.006 seconds (Warm-up) Chain 3: 0.004 seconds (Sampling) Chain 3: 0.01 seconds (Total) Chain 3: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 4). Chain 4: Chain 4: Gradient evaluation took 0.000392 seconds Chain 4: 1000 transitions using 10 leapfrog steps per transition would take 3.92 seconds. Chain 4: Adjust your expectations accordingly! Chain 4: Chain 4: Chain 4: WARNING: No variance estimation is Chain 4: performed for num_warmup < 20 Chain 4: Chain 4: Iteration: 1 / 8 [ 12%] (Warmup) Chain 4: Iteration: 2 / 8 [ 25%] (Warmup) Chain 4: Iteration: 3 / 8 [ 37%] (Warmup) Chain 4: Iteration: 4 / 8 [ 50%] (Warmup) Chain 4: Iteration: 5 / 8 [ 62%] (Sampling) Chain 4: Iteration: 6 / 8 [ 75%] (Sampling) Chain 4: Iteration: 7 / 8 [ 87%] (Sampling) Chain 4: Iteration: 8 / 8 [100%] (Sampling) Chain 4: Chain 4: Elapsed Time: 0.007 seconds (Warm-up) Chain 4: 0.005 seconds (Sampling) Chain 4: 0.012 seconds (Total) Chain 4: Formatting data for a multi-season occupancy model. For details, see make_flocker_data_dynamic. All warnings and error messages should be interpreted in the context of make_flocker_data_dynamic formatting unit indices | | | 0% | |==== | 5% | |======= | 10% | |========== | 15% | |============== | 20% | |================== | 25% | |===================== | 30% | |======================== | 35% | |============================ | 40% | |================================ | 45% | |=================================== | 50% | |====================================== | 55% | |========================================== | 60% | |============================================== | 65% | |================================================= | 70% | |==================================================== | 75% | |======================================================== | 80% | |============================================================ | 85% | |=============================================================== | 90% | |================================================================== | 95% | 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|===================================================================== | 99% | |======================================================================| 100% Compiling Stan program... Start sampling SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.000445 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 4.45 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 8 [ 12%] (Warmup) Chain 1: Iteration: 2 / 8 [ 25%] (Warmup) Chain 1: Iteration: 3 / 8 [ 37%] (Warmup) Chain 1: Iteration: 4 / 8 [ 50%] (Warmup) Chain 1: Iteration: 5 / 8 [ 62%] (Sampling) Chain 1: Iteration: 6 / 8 [ 75%] (Sampling) Chain 1: Iteration: 7 / 8 [ 87%] (Sampling) Chain 1: Iteration: 8 / 8 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.005 seconds (Warm-up) Chain 1: 0.003 seconds (Sampling) Chain 1: 0.008 seconds (Total) Chain 1: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 0.000368 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 3.68 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 8 [ 12%] (Warmup) Chain 2: Iteration: 2 / 8 [ 25%] (Warmup) Chain 2: Iteration: 3 / 8 [ 37%] (Warmup) Chain 2: Iteration: 4 / 8 [ 50%] (Warmup) Chain 2: Iteration: 5 / 8 [ 62%] (Sampling) Chain 2: Iteration: 6 / 8 [ 75%] (Sampling) Chain 2: Iteration: 7 / 8 [ 87%] (Sampling) Chain 2: Iteration: 8 / 8 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.005 seconds (Warm-up) Chain 2: 0.004 seconds (Sampling) Chain 2: 0.009 seconds (Total) Chain 2: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 3). Chain 3: Chain 3: Gradient evaluation took 0.000367 seconds Chain 3: 1000 transitions using 10 leapfrog steps per transition would take 3.67 seconds. Chain 3: Adjust your expectations accordingly! Chain 3: Chain 3: Chain 3: WARNING: No variance estimation is Chain 3: performed for num_warmup < 20 Chain 3: Chain 3: Iteration: 1 / 8 [ 12%] (Warmup) Chain 3: Iteration: 2 / 8 [ 25%] (Warmup) Chain 3: Iteration: 3 / 8 [ 37%] (Warmup) Chain 3: Iteration: 4 / 8 [ 50%] (Warmup) Chain 3: Iteration: 5 / 8 [ 62%] (Sampling) Chain 3: Iteration: 6 / 8 [ 75%] (Sampling) Chain 3: Iteration: 7 / 8 [ 87%] (Sampling) Chain 3: Iteration: 8 / 8 [100%] (Sampling) Chain 3: Chain 3: Elapsed Time: 0.004 seconds (Warm-up) Chain 3: 0.004 seconds (Sampling) Chain 3: 0.008 seconds (Total) Chain 3: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 4). Chain 4: Chain 4: Gradient evaluation took 0.000367 seconds Chain 4: 1000 transitions using 10 leapfrog steps per transition would take 3.67 seconds. Chain 4: Adjust your expectations accordingly! Chain 4: Chain 4: Chain 4: WARNING: No variance estimation is Chain 4: performed for num_warmup < 20 Chain 4: Chain 4: Iteration: 1 / 8 [ 12%] (Warmup) Chain 4: Iteration: 2 / 8 [ 25%] (Warmup) Chain 4: Iteration: 3 / 8 [ 37%] (Warmup) Chain 4: Iteration: 4 / 8 [ 50%] (Warmup) Chain 4: Iteration: 5 / 8 [ 62%] (Sampling) Chain 4: Iteration: 6 / 8 [ 75%] (Sampling) Chain 4: Iteration: 7 / 8 [ 87%] (Sampling) Chain 4: Iteration: 8 / 8 [100%] (Sampling) Chain 4: Chain 4: Elapsed Time: 0.004 seconds (Warm-up) Chain 4: 0.002 seconds (Sampling) Chain 4: 0.006 seconds (Total) Chain 4: | | | 0% | | | 1% | |= | 1% | |= | 2% | |== | 2% | |== | 3% | |== | 4% | |=== | 4% | |=== | 5% | |==== | 5% | |==== | 6% | |===== | 6% | |===== | 7% | |===== | 8% | |====== | 8% | |====== | 9% | |======= | 9% | |======= | 10% | |======= | 11% | |======== | 11% | |======== | 12% | |========= | 12% | |========= | 13% | |========= | 14% | |========== | 14% | |========== | 15% | |=========== | 15% | |=========== | 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|===================================================================== | 99% | |======================================================================| 99% | |======================================================================| 100% [ FAIL 0 | WARN 0 | SKIP 0 | PASS 570 ] > > proc.time() user system elapsed 108.84 3.23 420.57