* using log directory 'd:/RCompile/CRANincoming/R-devel/cliot.Rcheck'
* using R Under development (unstable) (2025-11-29 r89077 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.3.0
    GNU Fortran (GCC) 14.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'cliot/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'cliot' version '1.0.0'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [19s] NOTE
Maintainer: 'Neel Agarwal <neel.agarwal.216@gmail.com>'

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Neel",
                    family = "Agarwal",
                    role = c("aut", "cre"),
                    email = "neel.agarwal@osumc.edu")
as necessary.
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking serialization versions ... OK
* checking whether package 'cliot' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [62s] OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... NOTE
Rd file 'adapt_cardiac_risk.Rd':
  \usage lines wider than 90 characters:
     adapt_cardiac_risk(timi_score, ekg_new_ischemia, troponin_0h_positive, troponin_2h_positive)

Rd file 'adult_adhd_self_report_scale.Rd':
  \usage lines wider than 90 characters:
                                  q3_problems_remembering_appointments, q4_procrastinate_difficult_tasks,

Rd file 'aortic_dissection_detection_risk_score.Rd':
  \usage lines wider than 90 characters:
     aortic_dissection_detection_risk_score(high_risk_conditions, high_risk_pain, high_risk_exam)

Rd file 'apache_ii_score.Rd':
  \examples lines wider than 100 characters:
     apache_ii_score(75, 39, 50, 140, 35, 0.4, 50, NULL, 7.2, 130, 6.0, 2.0, 1, 25, 25, 10, 1, "non_operative")
     apache_ii_score(50, 37, 90, 80, 16, 0.21, 90, NULL, 7.4, 140, 4.0, 1.0, 0, 40, 8, 15, 0, "elective_postop")

Rd file 'breast_cancer_brain_metastasis_gpa.Rd':
  \examples lines wider than 100 characters:
     # Score = 4.0 (Wait, calculation: 2.0 + 1.0 + 0.5 + 0.5 + 0.5 = 4.5? Capped at 4.0 typically or sum is 4.0 max in original derivation.  ... [TRUNCATED]

Rd file 'calculate_feurea.Rd':
  \examples lines wider than 100 characters:
     # (100*2)/(40*40) = 200/1600 = 0.125 * 100 = 12.5% (Actually this example calculation suggests Prerenal,

Rd file 'canrisk_diabetes_score.Rd':
  \examples lines wider than 100 characters:
     # 55yo Male (+13+6), BMI 31 (+9), Waist 105 (+6), No Activity (+2), Parent DM (+4), High Risk Eth (+11)

Rd file 'charlson_comorbidity_index.Rd':
  \examples lines wider than 100 characters:
     charlson_comorbidity_index(75, 1, 1, 0, 0, 0, 0, 0, 0, "none", "end_organ_damage", 0, 0, "none", 0, 0, 0)
     charlson_comorbidity_index(45, 0, 0, 0, 0, 0, 0, 0, 0, "none", "uncomplicated", 0, 0, "none", 0, 0, 0)

Rd file 'cheops_pain_scale.Rd':
  \examples lines wider than 100 characters:
     # No cry (1), Smiling (0), Positive verbal (0), Neutral torso (1), Not touching (1), Neutral legs (1)

Rd file 'dhaka_dehydration_score.Rd':
  \examples lines wider than 100 characters:
     # Lethargic (2), Sunken Eyes (1), Dry Mouth (1), No Tears (1), Very Slow Turgor (2), Deep Breathing (1)

Rd file 'dsm5_major_depressive_disorder.Rd':
  \examples lines wider than 100 characters:
     # Depressed mood, loss of interest, sleep issues, fatigue, concentration issues (5 symptoms, core present)

Rd file 'figo_ovarian_cancer_staging.Rd':
  \examples lines wider than 100 characters:
     figo_ovarian_cancer_staging("both_ovaries", 1, 1, 1, "uterus_tubes", "macroscopic_gt_2cm", "retroperitoneal_gt_10mm", "none")

Rd file 'isee_eoe_severity_index.Rd':
  \usage lines wider than 90 characters:
                             esophageal_perforation, malnutrition_code, persistent_inflammation,

Rd file 'mipi_lymphoma_score.Rd':
  \examples lines wider than 100 characters:
     # Score approx: 2.47 + 0.69 + 0.41 + 1.22 = 4.79 (Wait, log10 logic checks: 1.367*log10(2)=0.41, 0.9393*log10(20)=1.22. Age term 0.0353 ... [TRUNCATED]
     # Age 70 = 2.4745. ECOG 1 = 0.6978. LDH 2.0 = 1.367 * 0.301 = 0.411. WBC 20 = 0.9393 * 1.301 = 1.222.
     # Age 80 (2.8), ECOG 3 (0.7), LDH 1000/200 (Ratio 5 -> log10(5)=0.7, 1.367*0.7=0.95), WBC 50 (log10(50)=1.7, 0.94*1.7=1.6)

Rd file 'modified_asthma_predictive_index.Rd':
  \examples lines wider than 100 characters:
     # Frequent wheezing (1), Eczema (1 Major), Eosinophilia (1 Minor - insufficient alone, but 1 major is enough)

Rd file 'multiple_myeloma_response_criteria.Rd':
  \examples lines wider than 100 characters:
     multiple_myeloma_response_criteria(4.0, 1.0, 1.5, 0, 0, 0, 0, 0, 0, 8, "positive", 2.0, "none", 0, 0)
     multiple_myeloma_response_criteria(4.0, 1.0, 2.0, 0, 0, 0, 0, 0, 0, 10, "positive", 2.0, "none", 0, 0)

Rd file 'pediatric_appendicitis_risk_calculator.Rd':
  \examples lines wider than 100 characters:
     # Male (+2), 10y (+7), Pain 36h (+4), Migration (+8), Guarding (+12), RLQ Tenderness (+16), ANC 15 (+49)

Rd file 'plasmic_score_ttp.Rd':
  \examples lines wider than 100 characters:
     # Plt 20 (<30, +1), Hemolysis (+1), No cancer (+1), No transplant (+1), MCV 85 (+1), INR 1.2 (+1), Cr 1.0 (+1)
     # Plt 100 (0), Hemolysis (+1), Active cancer (0), Transplant (0), MCV 95 (0), INR 1.8 (0), Cr 3.0 (0)
     # Score = 1 (Only Hemolysis + No Transplant/Cancer? Wait, No Cancer=+1, No Trans=+1. So 1+1+1 = 3? Let's recheck inputs: Plt=100(0), He ... [TRUNCATED]

Rd file 'prevail_prostate_cancer_survival.Rd':
  \examples lines wider than 100 characters:
     # Alb 42 g/L, ALP 80, Hb 13.5, LDH 180, NLR 2.5, <10 Bone mets, No Visceral, Pain 1, PSA 15, 48 months since Dx
     # Alb 30 g/L, ALP 300, Hb 10.0, LDH 400, NLR 6.0, >10 Bone mets, Visceral Yes, Pain 6, PSA 150, 12 months since Dx

Rd file 'priest_score.Rd':
  \examples lines wider than 100 characters:
     # Male (+1), 70yo (+3), RR 22 (+2), SpO2 93 (+2), HR 100 (+1), SBP 105 (+1), Temp 38.5 (+1), Alert, PS 2 (+1)

Rd file 'reveal_pah_risk_score.Rd':
  \examples lines wider than 100 characters:
     # Idiopathic, 40yo Female, Normal Renal, NYHA II, SBP 120, HR 80, No Hosp, 6MWD 450, NT-proBNP 200, No Effusion, DLCO 60, mRAP 10, PVR  ... [TRUNCATED]
     # CTD (+1), 70yo Male (+2), Renal (+1), NYHA III (+1), SBP 100 (+1), HR 100 (+1), Hosp (+1), 6MWD 150 (+1), BNP 900 (+2), Effusion (+1) ... [TRUNCATED]

Rd file 'revised_tokuhashi_score.Rd':
  \examples lines wider than 100 characters:
     # KPS 40 (0), 3 Extraspinal (0), 3 Vertebral (0), Unremovable Organ Mets (0), Lung CA (0), Complete Palsy (0)

Rd file 'rome_iv_cannabinoid_hyperemesis_syndrome.Rd':
  \examples lines wider than 100 characters:
     # Recurrent vomiting (1), Chronic use (1), Hot bath relief (1), Onset after cannabis (1), Exclusions clear, Chronic duration met

Rd file 'rome_iv_child_abdominal_migraine.Rd':
  \usage lines wider than 90 characters:
                                      pain_severity_moderate_severe, pain_fully_resolves_hours_days,
                                      associated_symptoms_count, not_explained_by_other_condition,
  \examples lines wider than 100 characters:
     # Duration 4h (1), Freq met (1), Pain location/severity/resolution met (1,1,1), 2+ associated symptoms (2), No other cause, Chronic dur ... [TRUNCATED]

Rd file 'rome_iv_child_aerophagia.Rd':
  \examples lines wider than 100 characters:
     # Frequency met (1), Air swallowing (1), Distention (1), Belching (1), No other cause (1), Chronic duration

Rd file 'rome_iv_child_cyclic_vomiting_syndrome.Rd':
  \examples lines wider than 100 characters:
     # Stereotypical (1), 3 episodes in 6 months, Inter-episodic wellness (1), Excluded other causes, Chronic duration met

Rd file 'rome_iv_child_functional_abdominal_pain.Rd':
  \examples lines wider than 100 characters:
     # Pain >4 days/mo, Periumbilical, NOT associated with defecation (0), Social impact, Pain-free periods, No organic cause

Rd file 'rome_iv_functional_chest_pain.Rd':
  \examples lines wider than 100 characters:
     # Retrosternal pain (1), No other Sx (0), Normal EGD (1), Normal Motility (1), Reflux excluded (1), Chronic duration
     # Retrosternal pain (1), Has heartburn (1), Normal EGD (1), Normal Motility (1), Reflux excluded (1), Chronic duration

Rd file 'rome_iv_functional_constipation.Rd':
  \examples lines wider than 100 characters:
     # <3 stools/week, Straining, Hard stools, Incomplete evacuation. No loose stools. Sufficient criteria met.

Rd file 'rome_iv_functional_heartburn.Rd':
  \examples lines wider than 100 characters:
     # Burning pain (1), PPI failure (1), No esophagitis (1), Normal reflux study (1), No motility issue (1), Chronic

Rd file 'rome_iv_functional_pancreatic_sod.Rd':
  \usage lines wider than 90 characters:
                                       symptom_onset_ge_6_months, symptoms_active_last_3_months)

Rd file 'rome_iv_infant_regurgitation.Rd':
  \examples lines wider than 100 characters:
     # Regurgitates frequently, but is also having difficulty swallowing (0 for no_retching_hematemesis_etc)

Rd file 'rome_iv_opioid_induced_constipation.Rd':
  \examples lines wider than 100 characters:
     # Opioid use (1), Symptoms worsened (1), Three constipation criteria met (e.g. straining, hard stool, lt 3 SBM)

Rd file 'rome_iv_proctalgia_fugax.Rd':
  \examples lines wider than 100 characters:
     # Recurrent pain (1), Duration minutes (1), Frequency 3/year (1), Organic excluded (1), Chronic met (1,1)

Rd file 'rome_iv_reflux_hypersensitivity.Rd':
  \examples lines wider than 100 characters:
     # All criteria met (bothersome symptoms, normal EGD, triggered by normal reflux, PPI refractory, no motility issues, chronic duration)

Rd file 'save_ecmo_score.Rd':
  \examples lines wider than 100 characters:
     # 30yo (+7), 70kg (+2), Myocarditis (+3), No Failures, 5h vent (0), PIP 18 (+3), No Arrest (0), DBP 60 (+3), PP 30 (0), HCO3 24 (0)
     # 70yo (0), 80kg (+2), Chronic HF (-5), Chronic Renal (-6), 48h vent (-4), Arrest (-2), DBP 30 (0), PP 15 (-2), HCO3 12 (-3)

Rd file 'score_4peps.Rd':
  \examples lines wider than 100 characters:
     # 70yo Female (0), Immobility (+2), O2 <95% (+3), Unilateral Edema (+3), PE Most Likely (+5) -> Score 13

Rd file 'scorten_score.Rd':
  \examples lines wider than 100 characters:
     # 50yo (+1), HR 130 (+1), No cancer, 20% BSA (+1), BUN 40 mg/dL (+1), Bicarb 18 (+1), Glucose 300 mg/dL (+1)

Rd file 'shorr_score_mrsa.Rd':
  \examples lines wider than 100 characters:
     # Score = 2 (Wait, 0-1 is Low, 2 is Intermediate in standard text, MDCalc says <1 Low. Let's verify cutoffs. Shorr text: <=1 Low risk ( ... [TRUNCATED]

Rd file 'sins_spine_score.Rd':
  \examples lines wider than 100 characters:
     # Junctional (3), Mechanical Pain (3), Lytic (2), Subluxation (4), >50% Collapse (3), Bilateral Posterior (3)
     sins_spine_score("junctional", "mechanical", "lytic", "subluxation_translation", "gt_50_percent", "bilateral")

Rd file 'smart_cop_score.Rd':
  \examples lines wider than 100 characters:
     # 45yo, SBP 85 (+2), Multilobar (+1), Alb 3.0 (+1), RR 30 (+1), HR 110 (0), Conf (0), Low O2 (+2), pH 7.30 (+2)

Rd file 'westley_croup_score.Rd':
  \examples lines wider than 100 characters:
     # Mild retractions (1), Stridor at rest (2), No cyanosis (0), Normal LOC (0), Decreased air entry (1)
     # Severe retractions (3), Stridor at rest (2), Agitated cyanosis (4), Normal LOC (0), Decreased air (1)

These lines will be truncated in the PDF manual.
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking examples ... [20s] OK
* checking PDF version of manual ... [37s] OK
* checking HTML version of manual ... [154s] OK
* DONE
Status: 2 NOTEs