Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-03-04 11:39:41 -0500 (Mon, 04 Mar 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | R Under development (unstable) (2024-01-16 r85808) -- "Unsuffered Consequences" | 4676 |
palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-01-14 r85805 ucrt) -- "Unsuffered Consequences" | 4414 |
merida1 | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-01-16 r85808) -- "Unsuffered Consequences" | 4441 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-01-16 r85812) -- "Unsuffered Consequences" | 4417 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
Package 1521/2251 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
PharmacoGx 3.7.2 (landing page) Benjamin Haibe-Kains
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | WARNINGS | |||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | |||||||||
merida1 | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | ||||||||||
To the developers/maintainers of the PharmacoGx package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/PharmacoGx.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: PharmacoGx |
Version: 3.7.2 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:PharmacoGx.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings PharmacoGx_3.7.2.tar.gz |
StartedAt: 2024-03-02 08:25:18 -0500 (Sat, 02 Mar 2024) |
EndedAt: 2024-03-02 08:40:31 -0500 (Sat, 02 Mar 2024) |
EllapsedTime: 912.8 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: PharmacoGx.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:PharmacoGx.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings PharmacoGx_3.7.2.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/PharmacoGx.Rcheck’ * using R Under development (unstable) (2024-01-16 r85808) * using platform: x86_64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Monterey 12.7.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘PharmacoGx/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘PharmacoGx’ version ‘3.7.2’ * package encoding: UTF-8 * 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 for sufficient/correct file permissions ... OK * checking whether package ‘PharmacoGx’ can be installed ... OK * used C compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’ * used C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’ * used SDK: ‘MacOSX11.3.sdk’ * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... 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 R 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 whether startup messages can be suppressed ... OK * checking dependencies in R code ... NOTE There are ::: calls to the package's namespace in its code. A package almost never needs to use ::: for its own objects: ‘.Hill’ ‘.summarizeSensitivityNumbers’ ‘partialCorQUICKSTOP’ * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE .computeZIPdelta: no visible binding for global variable ‘EC50_proj_1_to_2’ .computeZIPdelta: no visible binding for global variable ‘EC50_proj_2_to_1’ .computeZIPdelta: no visible binding for global variable ‘HS_proj_1_to_2’ .computeZIPdelta: no visible binding for global variable ‘HS_proj_2_to_1’ .computeZIPdelta: no visible binding for global variable ‘E_inf_proj_2_to_1’ .computeZIPdelta: no visible binding for global variable ‘E_inf_proj_1_to_2’ .computeZIPdelta: no visible binding for global variable ‘Rsqr_1_to_2’ .computeZIPdelta: no visible binding for global variable ‘Rsqr_2_to_1’ .plotProjHill: no visible binding for global variable ‘treatment1id’ .plotProjHill: no visible binding for global variable ‘treatment2id’ .plotProjHill: no visible binding for global variable ‘treatment2dose’ .plotProjHill: no visible binding for global variable ‘EC50_proj_2_to_1’ .plotProjHill: no visible binding for global variable ‘HS_proj_2_to_1’ .plotProjHill: no visible binding for global variable ‘EC50_2’ .plotProjHill: no visible binding for global variable ‘E_inf_2’ .plotProjHill: no visible binding for global variable ‘E_inf_proj_2_to_1’ .plotProjHill: no visible binding for global variable ‘HS_2’ .plotProjHill: no visible binding for global variable ‘treatment1dose’ .plotProjHill: no visible binding for global variable ‘combo_viability’ .plotProjHill: no visible binding for global variable ‘x’ .plotProjHill: no visible binding for global variable ‘EC50_proj_1_to_2’ .plotProjHill: no visible binding for global variable ‘HS_proj_1_to_2’ .plotProjHill: no visible binding for global variable ‘EC50_1’ .plotProjHill: no visible binding for global variable ‘HS_1’ .plotProjHill: no visible binding for global variable ‘E_inf_1’ .plotProjHill: no visible binding for global variable ‘E_inf_proj_1_to_2’ fitTwowayZIP: no visible binding for global variable ‘treatment1dose’ fitTwowayZIP: no visible binding for global variable ‘combo_viability’ fitTwowayZIP: no visible binding for global variable ‘treatment2dose’ fitTwowayZIP: no visible binding for global variable ‘EC50_2’ fitTwowayZIP: no visible binding for global variable ‘HS_2’ fitTwowayZIP: no visible binding for global variable ‘E_inf_2’ fitTwowayZIP: no visible binding for global variable ‘EC50_1’ fitTwowayZIP: no visible binding for global variable ‘HS_1’ fitTwowayZIP: no visible binding for global variable ‘E_inf_1’ mergePSets: no visible global function definition for ‘checkPSetStructure’ computeZIPdelta,TreatmentResponseExperiment: no visible binding for global variable ‘ZIP’ computeZIPdelta,TreatmentResponseExperiment: no visible binding for global variable ‘EC50_proj_1_to_2’ computeZIPdelta,TreatmentResponseExperiment: no visible binding for global variable ‘EC50_proj_2_to_1’ computeZIPdelta,TreatmentResponseExperiment: no visible binding for global variable ‘EC50_1’ computeZIPdelta,TreatmentResponseExperiment: no visible binding for global variable ‘EC50_2’ computeZIPdelta,TreatmentResponseExperiment: no visible binding for global variable ‘HS_proj_1_to_2’ computeZIPdelta,TreatmentResponseExperiment: no visible binding for global variable ‘HS_proj_2_to_1’ computeZIPdelta,TreatmentResponseExperiment: no visible binding for global variable ‘HS_1’ computeZIPdelta,TreatmentResponseExperiment: no visible binding for global variable ‘HS_2’ computeZIPdelta,TreatmentResponseExperiment: no visible binding for global variable ‘E_inf_1’ computeZIPdelta,TreatmentResponseExperiment: no visible binding for global variable ‘E_inf_2’ computeZIPdelta,TreatmentResponseExperiment: no visible binding for global variable ‘E_inf_proj_2_to_1’ computeZIPdelta,TreatmentResponseExperiment: no visible binding for global variable ‘E_inf_proj_1_to_2’ computeZIPdelta,TreatmentResponseExperiment: no visible binding for global variable ‘treatment1dose’ computeZIPdelta,TreatmentResponseExperiment: no visible binding for global variable ‘treatment2dose’ computeZIPdelta,TreatmentResponseExperiment: no visible binding for global variable ‘Rsqr_1_to_2’ computeZIPdelta,TreatmentResponseExperiment: no visible binding for global variable ‘Rsqr_2_to_1’ Undefined global functions or variables: EC50_1 EC50_2 EC50_proj_1_to_2 EC50_proj_2_to_1 E_inf_1 E_inf_2 E_inf_proj_1_to_2 E_inf_proj_2_to_1 HS_1 HS_2 HS_proj_1_to_2 HS_proj_2_to_1 Rsqr_1_to_2 Rsqr_2_to_1 ZIP checkPSetStructure combo_viability treatment1dose treatment1id treatment2dose treatment2id x * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... WARNING Codoc mismatches from Rd file 'dot-summarizeSensProfiles.Rd': .summarizeSensProfiles Code: function(object, sensitivity.measure = "auc_recomputed", profiles_assay = "profiles", treatment_col = "treatmentid", sample_col = "sampleid", cell.lines, drugs, summary.stat, fill.missing = TRUE) Docs: function(object, sensitivity.measure = "auc_recomputed", cell.lines, drugs, summary.stat, fill.missing = TRUE) Argument names in code not in docs: profiles_assay treatment_col sample_col Mismatches in argument names (first 3): Position: 3 Code: profiles_assay Docs: cell.lines Position: 4 Code: treatment_col Docs: drugs Position: 5 Code: sample_col Docs: summary.stat Codoc mismatches from Rd file 'drugDoseResponseCurve.Rd': drugDoseResponseCurve Code: function(drug, cellline, pSets = list(), concentrations = list(), viabilities = list(), conc_as_log = FALSE, viability_as_pct = TRUE, trunc = TRUE, legends.label = c("ic50_published", "gi50_published", "auc_published", "auc_recomputed", "ic50_recomputed"), ylim = c(0, 100), xlim, mycol, title, plot.type = c("Fitted", "Actual", "Both"), summarize.replicates = TRUE, lwd = 0.5, cex = 0.7, cex.main = 0.9, legend.loc = "topright", verbose = TRUE, sample_col = "sampleid", treatment_col = "treatmentid") Docs: function(drug, cellline, pSets = list(), concentrations = list(), viabilities = list(), conc_as_log = FALSE, viability_as_pct = TRUE, trunc = TRUE, legends.label = c("ic50_published", "gi50_published", "auc_published", "auc_recomputed", "ic50_recomputed"), ylim = c(0, 100), xlim, mycol, title, plot.type = c("Fitted", "Actual", "Both"), summarize.replicates = TRUE, lwd = 0.5, cex = 0.7, cex.main = 0.9, legend.loc = "topright", verbose = TRUE) Argument names in code not in docs: sample_col treatment_col Codoc mismatches from Rd file 'summarizeSensitivityProfiles-PharmacoSet-method.Rd': \S4method{summarizeSensitivityProfiles}{PharmacoSet} Code: function(object, sensitivity.measure = "auc_recomputed", cell.lines, profiles_assay = "profiles", treatment_col = "treatmentid", sample_col = "sampleid", drugs, summary.stat = c("mean", "median", "first", "last", "max", "min"), fill.missing = TRUE, verbose = TRUE) Docs: function(object, sensitivity.measure = "auc_recomputed", cell.lines, drugs, summary.stat = c("mean", "median", "first", "last", "max", "min"), fill.missing = TRUE, verbose = TRUE) Argument names in code not in docs: profiles_assay treatment_col sample_col Mismatches in argument names (first 3): Position: 4 Code: profiles_assay Docs: drugs Position: 5 Code: treatment_col Docs: summary.stat Position: 6 Code: sample_col Docs: fill.missing * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... NOTE Note: found 2251 marked UTF-8 strings * checking data for ASCII and uncompressed saves ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking compiled code ... NOTE Note: information on .o files is not available * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed PharmacoSet-accessors 8.995 9.608 23.585 plot.PharmacoSig 7.634 1.499 5.090 drugPerturbationSig 4.519 0.443 6.177 mcc 0.028 0.026 7.183 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 WARNING, 4 NOTEs See ‘/Users/biocbuild/bbs-3.19-bioc/meat/PharmacoGx.Rcheck/00check.log’ for details.
PharmacoGx.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL PharmacoGx ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’ * installing *source* package ‘PharmacoGx’ ... ** using staged installation ** libs using C compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’ using C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’ using SDK: ‘MacOSX11.3.sdk’ clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c metaPermC.c -o metaPermC.o metaPermC.c:143:12: warning: unused variable 'num_larger' [-Wunused-variable] uint64_t num_larger = 0; ^ metaPermC.c:328:10: warning: unused variable 'temp' [-Wunused-variable] double temp; ^ 2 warnings generated. clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c rCPP_bridge.cpp -o rCPP_bridge.o clang++ -arch x86_64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o PharmacoGx.so RcppExports.o metaPermC.o rCPP_bridge.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/00LOCK-PharmacoGx/00new/PharmacoGx/libs ** R ** data ** 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 (PharmacoGx)
PharmacoGx.Rcheck/tests/testthat.Rout
R Under development (unstable) (2024-01-16 r85808) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin20 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. > Sys.unsetenv("R_TESTS") > > library(testthat) > library(PharmacoGx) Loading required package: CoreGx Loading required package: BiocGenerics Attaching package: 'BiocGenerics' The following objects are masked from 'package:stats': IQR, mad, sd, var, xtabs The following objects are masked from 'package:base': Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append, as.data.frame, basename, cbind, colnames, dirname, do.call, duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind, rownames, sapply, setdiff, table, tapply, union, unique, unsplit, which.max, which.min Loading required package: SummarizedExperiment Loading required package: MatrixGenerics Loading required package: matrixStats Attaching package: 'MatrixGenerics' The following objects are masked from 'package:matrixStats': colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse, colCounts, colCummaxs, colCummins, colCumprods, colCumsums, colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs, colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats, colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds, colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads, colWeightedMeans, colWeightedMedians, colWeightedSds, colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet, rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods, rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps, rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins, rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks, rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars, rowWeightedMads, rowWeightedMeans, rowWeightedMedians, rowWeightedSds, rowWeightedVars Loading required package: GenomicRanges Loading required package: stats4 Loading required package: S4Vectors Attaching package: 'S4Vectors' The following object is masked from 'package:utils': findMatches The following objects are masked from 'package:base': I, expand.grid, unname Loading required package: IRanges Loading required package: GenomeInfoDb Loading required package: Biobase Welcome to Bioconductor Vignettes contain introductory material; view with 'browseVignettes()'. To cite Bioconductor, see 'citation("Biobase")', and for packages 'citation("pkgname")'. Attaching package: 'Biobase' The following object is masked from 'package:MatrixGenerics': rowMedians The following objects are masked from 'package:matrixStats': anyMissing, rowMedians Attaching package: 'PharmacoGx' The following objects are masked from 'package:CoreGx': .parseToRoxygen, amcc, connectivityScore, cosinePerm, gwc, mcc > > test_check("PharmacoGx") | | | 0% | |======================================================================| 100% | | | 0% | |======================================================================| 100% [1] 1 1 -1 [1] 0 [1] 0 [,1] [,2] [,3] lower_bounds 0 0 0 upper_bounds 1 1 -1 | | | 0% | |======================================================================| 100% | | | 0% | |======================================================================| 100% | | | 0% | |======================================================================| 100% | | | 0% | |======================================================================| 100% | | | 0% | |======================================================================| 100% | | | 0% | |======================================================================| 100% | | | 0% | |======================================================================| 100% [ FAIL 0 | WARN 3 | SKIP 1 | PASS 129 ] ══ Skipped tests (1) ═══════════════════════════════════════════════════════════ • empty test (1): 'test_PharmacoSet_utils.R:28:1' [ FAIL 0 | WARN 3 | SKIP 1 | PASS 129 ] > > proc.time() user system elapsed 165.979 3.041 214.554
PharmacoGx.Rcheck/PharmacoGx-Ex.timings
name | user | system | elapsed | |
PharmacoSet-accessors | 8.995 | 9.608 | 23.585 | |
PharmacoSet-utils | 2.936 | 0.048 | 3.684 | |
PharmacoSet | 0.004 | 0.001 | 0.005 | |
PharmacoSet2 | 2.095 | 0.033 | 2.663 | |
PharmacoSig | 0.050 | 0.020 | 0.086 | |
amcc | 0.001 | 0.001 | 0.001 | |
availablePSets | 0.000 | 0.001 | 0.000 | |
callingWaterfall | 0 | 0 | 0 | |
checkPsetStructure | 2.098 | 0.034 | 2.645 | |
computeABC | 2.335 | 0.127 | 3.050 | |
computeAUC | 1.182 | 0.052 | 1.535 | |
computeAmax | 1.133 | 0.013 | 1.436 | |
computeBliss | 0.001 | 0.001 | 0.001 | |
computeHSA | 0.000 | 0.001 | 0.000 | |
computeICn | 2.296 | 0.027 | 2.899 | |
computeLoewe | 0.001 | 0.000 | 0.001 | |
computeSlope | 0.001 | 0.001 | 0.002 | |
computeZIP | 0.001 | 0.000 | 0.005 | |
computeZIPdelta-TreatmentResponseExperiment-method | 0.001 | 0.001 | 0.001 | |
computeZIPdelta | 0.000 | 0.000 | 0.001 | |
connectivityScore | 3.456 | 0.224 | 4.783 | |
cosinePerm | 0.141 | 0.137 | 0.269 | |
dot-computeZIPdelta | 0.000 | 0.002 | 0.002 | |
downloadPSet | 0.000 | 0.001 | 0.001 | |
downloadPertSig | 0.000 | 0.000 | 0.001 | |
drugDoseResponseCurve | 0.001 | 0.003 | 0.003 | |
drugPerturbationSig | 4.519 | 0.443 | 6.177 | |
drugSensitivitySig-PharmacoSet-method | 2.336 | 0.071 | 3.058 | |
effectToDose | 0.001 | 0.000 | 0.001 | |
filterNoisyCurves | 2.644 | 0.081 | 3.625 | |
fitTwowayZIP | 0.000 | 0.000 | 0.001 | |
geneDrugSensitivity | 0.000 | 0.001 | 0.003 | |
geneDrugSensitivityPBCorr | 0.001 | 0.001 | 0.001 | |
geneDrugSensitivityPCorr | 0 | 0 | 0 | |
gwc | 2.136 | 0.181 | 3.037 | |
hillCurve | 0.000 | 0.001 | 0.002 | |
intersectPSet | 2.548 | 0.183 | 3.711 | |
loeweCI | 0.001 | 0.002 | 0.001 | |
logLogisticRegression | 1.250 | 0.167 | 1.975 | |
mcc | 0.028 | 0.026 | 7.183 | |
plot.PharmacoSig | 7.634 | 1.499 | 5.090 | |
show-PharmacoSet-method | 2.077 | 0.084 | 2.784 | |
show-PharmacoSig-method | 2.225 | 0.062 | 3.084 | |
showSigAnnot-PharmacoSig-method | 2.249 | 0.062 | 3.196 | |
sub-PharmacoSet-ANY-ANY-ANY-method | 2.211 | 0.037 | 2.924 | |
subsetTo-PharmacoSet-method | 2.185 | 0.041 | 3.005 | |
summarizeMolecularProfiles-PharmacoSet-method | 0.243 | 0.009 | 0.341 | |
summarizeSensitivityProfiles-PharmacoSet-method | 0.108 | 0.006 | 0.190 | |