Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-03-28 11:39:08 -0400 (Thu, 28 Mar 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4708 |
palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-03-16 r86144 ucrt) -- "Unsuffered Consequences" | 4446 |
lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4471 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-03-19 r86153) -- "Unsuffered Consequences" | 4426 |
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 517/2270 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
DECIPHER 2.31.3 (landing page) Erik Wright
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the DECIPHER package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/DECIPHER.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: DECIPHER |
Version: 2.31.3 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:DECIPHER.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings DECIPHER_2.31.3.tar.gz |
StartedAt: 2024-03-27 20:39:37 -0400 (Wed, 27 Mar 2024) |
EndedAt: 2024-03-27 20:57:22 -0400 (Wed, 27 Mar 2024) |
EllapsedTime: 1064.9 seconds |
RetCode: 0 |
Status: OK |
CheckDir: DECIPHER.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:DECIPHER.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings DECIPHER_2.31.3.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/DECIPHER.Rcheck’ * using R Under development (unstable) (2024-03-18 r86148) * 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 ‘DECIPHER/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘DECIPHER’ version ‘2.31.3’ * 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 ‘DECIPHER’ can be installed ... OK * used C compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’ * used SDK: ‘MacOSX11.3.sdk’ * checking installed package size ... NOTE installed size is 12.3Mb sub-directories of 1Mb or more: R 1.5Mb data 7.5Mb extdata 2.3Mb * 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 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 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 ... NOTE AlignSeqs: no visible binding for global variable ‘deltaGrulesRNA’ DesignSignatures: no visible binding for global variable ‘deltaHrules’ FindGenes: no visible binding for global variable ‘deltaHrulesRNA’ FindNonCoding: no visible binding for global variable ‘deltaHrulesRNA’ LearnNonCoding: no visible binding for global variable ‘deltaHrulesRNA’ PredictDBN: no visible binding for global variable ‘deltaGrulesRNA’ TreeLine: multiple local function definitions for ‘.minimize’ with different formal arguments Undefined global functions or variables: deltaGrulesRNA deltaHrules deltaHrulesRNA * checking Rd files ... NOTE checkRd: (-1) IdTaxa.Rd:27: Lost braces; missing escapes or markup? 27 | An object of class \code{Taxa} and subclass {Train} compatible with the class of \code{test}. | ^ checkRd: (-1) IdTaxa.Rd:61: Lost braces; missing escapes or markup? 61 | If \code{type} is \code{"extended"} (the default) then an object of class \code{Taxa} and subclass {Train} is returned. This is stored as a list with elements corresponding to their respective sequence in \code{test}. Each list element contains components: | ^ checkRd: (-1) LearnTaxa.Rd:75: Lost braces; missing escapes or markup? 75 | An object of class \code{Taxa} and subclass {Train}, which is stored as a list with components: | ^ * checking Rd metadata ... OK * 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking compilation flags in Makevars ... OK * checking for GNU extensions in Makefiles ... OK * checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK * checking use of PKG_*FLAGS in Makefiles ... OK * checking compiled code ... NOTE Note: information on .o files is not available * checking sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed AlignSeqs 208.231 5.083 215.190 LearnNonCoding 121.524 5.349 127.854 MapCharacters 85.299 1.501 93.596 FindNonCoding 59.727 5.599 65.904 WriteGenes 36.945 1.799 39.015 ExtractGenes 37.247 1.256 38.762 BrowseSeqs 37.096 0.721 44.395 FindGenes 35.062 1.356 36.700 Genes-class 34.526 1.574 36.430 CorrectFrameshifts 20.167 1.645 22.063 DetectRepeats 21.115 0.232 21.496 StaggerAlignment 15.341 1.097 16.596 AlignTranslation 15.675 0.348 16.254 Taxa-class 11.490 0.586 12.172 TreeLine 11.128 0.429 11.629 IdTaxa 9.400 0.472 9.954 LearnTaxa 6.192 1.941 8.231 Clusterize 6.816 0.862 7.772 ScoreAlignment 6.390 0.249 6.679 Array2Matrix 6.240 0.060 6.344 DesignArray 6.040 0.050 6.130 TileSeqs 5.225 0.048 5.307 * 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: 4 NOTEs See ‘/Users/biocbuild/bbs-3.19-bioc/meat/DECIPHER.Rcheck/00check.log’ for details.
DECIPHER.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL DECIPHER ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’ * installing *source* package ‘DECIPHER’ ... ** using staged installation ** libs using C compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’ using SDK: ‘MacOSX11.3.sdk’ clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c AlignProfiles.c -o AlignProfiles.o AlignProfiles.c:90:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ AlignProfiles.c:828:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 2 warnings generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c AssignIndels.c -o AssignIndels.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Biostrings_stubs.c -o Biostrings_stubs.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c CalculateDeltaG.c -o CalculateDeltaG.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c CalculateFISH.c -o CalculateFISH.o CalculateFISH.c:26:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -11.5, -7.8, -7, -8.3, ^~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:27:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -10.4, -12.8, -16.3, -9.1, ^~~~~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:28:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -8.6, -8, -9.3, -5.9, ^~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:29:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -7.8, -5.5, -9, -7.8 ^~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:32:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -36.4, -21.6, -19.7, -23.9, ^~~~~~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:33:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -28.4, -31.9, -47.1, -23.5, ^~~~~~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:34:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -22.9, -17.1, -23.2, -12.3, ^~~~~~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:35:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -23.2, -13.5, -26.1, -21.9 ^~~~~~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:38:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -7.9, -8.4, -7.8, -7.2, ^~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:39:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -8.5, -8, -10.6, -7.8, ^~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:40:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -8.2, -9.8, -8, -8.4, ^~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:41:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -7.2, -8.2, -8.5, -7.9 ^~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:44:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -22.2, -22.4, -21, -20.4, ^~~~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:45:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -22.7, -19.9, -27.2, -21, ^~~~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:46:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -22.2, -24.4, -19.9, -22.4, ^~~~~~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:47:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -21.3, -22.2, -22.7, -22.2 ^~~~~~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:50:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -6.6, -10.17, -7.65, -5.76, ^~~~~~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:51:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -10.56, -12.21, -7.95, -7.65, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:52:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -13.37, -14.21, -12.21, -10.17, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:53:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -8.11, -13.37, -10.56, -6.6 ^~~~~~~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:56:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -18.38, -26.03, -19.18, -15.67, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:57:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -28.25, -30.02, -19.18, -19.18, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:58:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -35.68, -34.85, -30.02, -26.03, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } CalculateFISH.c:59:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -22.59, -35.68, -28.25, -18.38 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } 24 warnings generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c ChainSegments.c -o ChainSegments.o ChainSegments.c:714:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 1 warning generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Cluster.c -o Cluster.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c ClusterML.c -o ClusterML.o ClusterML.c:1143:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 1 warning generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c ClusterMP.c -o ClusterMP.o ClusterMP.c:109:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 1 warning generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Compositions.c -o Compositions.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Compression.c -o Compression.o Compression.c:520:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ Compression.c:1407:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ Compression.c:1705:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 3 warnings generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c ConsensusSequence.c -o ConsensusSequence.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c DesignProbes.c -o DesignProbes.o DesignProbes.c:71:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -0.816507461,-2.5401714,-1.647430026,-1.184658548 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:72:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,-1.854740485,-2.479102613,-2.826248182,-1.647430026 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:73:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,-2.48761723,-4.694133177,-2.479102613,-2.5401714 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:74:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,-0.495794417,-2.48761723,-1.854740485,-0.816507461 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:78:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -0.141370102,-0.439805276,-0.285236035,-0.205111781 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:79:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,-0.321129768,-0.429231826,-0.48933661,-0.285236035 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:80:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,-0.430706047,-0.812742218,-0.429231826,-0.439805276 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:81:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,-0.085841845,-0.430706047,-0.321129768,-0.141370102 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:85:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] 0,0,0,0 ^~~~~~~ { } DesignProbes.c:86:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.545032445,1.254355018,1.491691514,1.329138183 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:87:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.150635633,0.582415494,1.075877275,1.187937642 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:88:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.203555051,1.001540513,0.864287715,0.717125848 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:89:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.75,0.65,0.69,0.78 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:85:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] 0,0,0,0 ^~~~~~~ { DesignProbes.c:90:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.630005348,0.18553379,0.730763505,0.709272397 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:91:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:92:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.856582783,-0.143236405,0.716721488,0.603652831 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:93:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.851622883,0.653168672,0.676545316,1.187937642 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:94:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.75,0.65,0.69,0.78 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:90:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.630005348,0.18553379,0.730763505,0.709272397 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { DesignProbes.c:95:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.231861002,0.746214538,1.087821916,0.989140748 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:96:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.822113278,1.270687029,1.336192565,1.364584949 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:97:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:98:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.443665704,1.385046493,1.256013166,1.329138183 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:99:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.75,0.65,0.69,0.78 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:95:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.231861002,0.746214538,1.087821916,0.989140748 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { DesignProbes.c:100:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.478009492,0.882097231,1.20450984,1.061002478 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:101:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.496720812,0.846496194,0.967868114,0.989140748 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:102:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.766581547,-0.024857805,0.50754303,0.709272397 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:103:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:104:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.75,0.65,0.69,0.78 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:100:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.478009492,0.882097231,1.20450984,1.061002478 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { DesignProbes.c:105:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.75,0.65,0.69,0.78 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:106:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.75,0.65,0.69,0.78 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:107:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.75,0.65,0.69,0.78 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:108:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.76,0.65,0.69,0.78 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:109:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:105:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.75,0.65,0.69,0.78 ^~~~~~~~~~~~~~~~~~~ { DesignProbes.c:85:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] 0,0,0,0 ^~~~~~~ { DesignProbes.c:110:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:111:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.295827995,0.84547091,0.91019099,1.256013166 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:112:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.755889609,0.241428373,0.396379912,0.676545316 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:113:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.99945386,0.740323132,0.435659206,0.864287715 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:114:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.65,0.55,0.48,0.69 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:110:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { DesignProbes.c:115:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.843147406,0.101248351,0.49063599,0.50754303 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:116:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:117:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.0651638,0.249934344,0.699352949,0.716721488 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:118:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.871921533,0.59458138,0.396379912,1.075877275 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:119:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.65,0.56,0.49,0.69 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:115:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.843147406,0.101248351,0.49063599,0.50754303 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { DesignProbes.c:120:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.07531714,0.318907854,0.653287717,0.967868114 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:121:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.099899195,0.730184613,0.661798984,1.336192565 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:122:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:123:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.45897431,1.318532145,0.91019099,1.491691514 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:124:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.65,0.56,0.49,0.69 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:120:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.07531714,0.318907854,0.653287717,0.967868114 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { DesignProbes.c:125:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.242135174,0.894838095,1.108555445,1.20450984 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:126:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.911428974,0.524430101,0.653287717,1.087821916 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:127:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.503209827,0.274849491,0.49063599,0.730763505 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:128:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:129:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.65,0.55,0.48,0.69 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:125:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.242135174,0.894838095,1.108555445,1.20450984 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { DesignProbes.c:130:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.65,0.55,0.48,0.69 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:131:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.65,0.56,0.49,0.69 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:132:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.65,0.56,0.49,0.69 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:133:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.65,0.55,0.48,0.69 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:134:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:130:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.65,0.55,0.48,0.69 ^~~~~~~~~~~~~~~~~~~ { DesignProbes.c:110:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { DesignProbes.c:135:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:136:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.100661785,0.969784756,1.318532145,1.385046493 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:137:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.565895968,-0.060347902,0.59458138,0.653168672 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:138:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.782168488,0.788161238,0.740323132,1.001540513 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:139:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.68,0.46,0.55,0.65 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:135:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { DesignProbes.c:140:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.468913405,-0.469855984,0.274849491,-0.024857805 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:141:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:142:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.258195131,-0.70438632,0.249934344,-0.143236405 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:143:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.502914193,-0.060347902,0.241428373,0.582415494 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:144:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.68,0.47,0.56,0.65 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:140:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.468913405,-0.469855984,0.274849491,-0.024857805 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { DesignProbes.c:145:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.584083861,0.258975454,0.524430101,0.846496194 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:146:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.968040559,0.797499702,0.730184613,1.270687029 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:147:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:148:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.081040749,0.969784756,0.84547091,1.254355018 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:149:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.68,0.47,0.56,0.65 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:145:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.584083861,0.258975454,0.524430101,0.846496194 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { DesignProbes.c:150:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.048553951,0.728354541,0.894838095,0.882097231 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:151:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.88611252,0.258975454,0.318907854,0.746214538 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:152:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.239520858,-0.469855984,0.101248351,0.18553379 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:153:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:154:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.68,0.46,0.55,0.65 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:150:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.048553951,0.728354541,0.894838095,0.882097231 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { DesignProbes.c:155:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.68,0.46,0.55,0.65 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:156:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.68,0.47,0.56,0.65 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:157:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.68,0.47,0.56,0.65 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:158:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.68,0.46,0.55,0.65 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:159:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:155:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.68,0.46,0.55,0.65 ^~~~~~~~~~~~~~~~~~~ { DesignProbes.c:135:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { DesignProbes.c:160:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:161:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.566899704,1.081040749,1.45897431,1.443665704 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:162:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.976725675,0.502914193,0.871921533,0.851622883 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:163:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.482046826,0.782168488,0.99945386,1.203555051 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:164:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.85,0.68,0.65,0.76 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:160:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { DesignProbes.c:165:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.798628781,0.239520858,0.503209827,0.766581547 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:166:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:167:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.141098246,0.258195131,1.0651638,0.856582783 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:168:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.976725675,0.565895968,0.755889609,1.150635633 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:169:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.85,0.68,0.65,0.75 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:165:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.798628781,0.239520858,0.503209827,0.766581547 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { DesignProbes.c:170:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.125403302,0.88611252,0.911428974,1.496720812 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:171:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.68169282,0.968040559,1.099899195,1.822113278 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:172:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:173:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.566899704,1.100661785,1.295827995,1.545032445 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:174:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.85,0.68,0.65,0.75 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:170:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.125403302,0.88611252,0.911428974,1.496720812 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { DesignProbes.c:175:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.35948517,1.048553951,1.242135174,1.478009492 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:176:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.125403302,0.584083861,1.07531714,1.231861002 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:177:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.798628781,0.468913405,0.843147406,0.630005348 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:178:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:179:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.85,0.68,0.65,0.75 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:175:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,1.35948517,1.048553951,1.242135174,1.478009492 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ { DesignProbes.c:180:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.85,0.68,0.65,0.75 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:181:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.85,0.68,0.65,0.75 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:182:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.85,0.68,0.65,0.75 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:183:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.85,0.68,0.65,0.75 ^~~~~~~~~~~~~~~~~~~ { } DesignProbes.c:184:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { } DesignProbes.c:180:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0.85,0.68,0.65,0.75 ^~~~~~~~~~~~~~~~~~~ { DesignProbes.c:160:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,0,0,0,0 ^~~~~~~ { DesignProbes.c:58:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 133 warnings generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Diff.c -o Diff.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c DistanceMatrix.c -o DistanceMatrix.o DistanceMatrix.c:319:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ DistanceMatrix.c:905:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 2 warnings generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c EnumerateSequence.c -o EnumerateSequence.o EnumerateSequence.c:225:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ EnumerateSequence.c:784:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 2 warnings generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c ExpandAmbiguities.c -o ExpandAmbiguities.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c FindFrameshifts.c -o FindFrameshifts.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c GeneFinding.c -o GeneFinding.o GeneFinding.c:3260:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ GeneFinding.c:3337:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ GeneFinding.c:3394:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 3 warnings generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c GetPools.c -o GetPools.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Import.c -o Import.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c InformationContent.c -o InformationContent.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c IntDist.c -o IntDist.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c ManipulateXStringSet.c -o ManipulateXStringSet.o ManipulateXStringSet.c:54:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ ManipulateXStringSet.c:688:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ ManipulateXStringSet.c:813:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 3 warnings generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c MeltPolymer.c -o MeltPolymer.o MeltPolymer.c:80:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -7.9,-8.4,-7.8,-7.2 ^~~~~~~~~~~~~~~~~~~ { } MeltPolymer.c:81:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,-8.5,-8.0,-10.6,-7.8 ^~~~~~~~~~~~~~~~~~~~ { } MeltPolymer.c:82:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,-8.2,-9.8,-8.0,-8.4 ^~~~~~~~~~~~~~~~~~~ { } MeltPolymer.c:83:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,-7.2,-8.2,-8.5,-7.9 ^~~~~~~~~~~~~~~~~~~ { } MeltPolymer.c:89:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -22.2,-22.4,-21.0,-20.4 ^~~~~~~~~~~~~~~~~~~~~~~ { } MeltPolymer.c:90:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,-22.7,-19.9,-27.2,-21.0 ^~~~~~~~~~~~~~~~~~~~~~~ { } MeltPolymer.c:91:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,-22.2,-24.4,-19.9,-22.4 ^~~~~~~~~~~~~~~~~~~~~~~ { } MeltPolymer.c:92:4: warning: suggest braces around initialization of subobject [-Wmissing-braces] ,-21.3,-22.2,-22.7,-22.2 ^~~~~~~~~~~~~~~~~~~~~~~ { } 8 warnings generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c MovingAverage.c -o MovingAverage.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c NNLS.c -o NNLS.o NNLS.c:49:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 1 warning generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Order.c -o Order.o Order.c:45:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 1 warning generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c PairwiseAlignment.c -o PairwiseAlignment.o PairwiseAlignment.c:187:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ PairwiseAlignment.c:1028:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 2 warnings generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c PredictDBN.c -o PredictDBN.o PredictDBN.c:159:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 1 warning generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c PredictHEC.c -o PredictHEC.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c R_init_decipher.c -o R_init_decipher.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c S4Vectors_stubs.c -o S4Vectors_stubs.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Search.c -o Search.o Search.c:64:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 1 warning generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c TerminalMismatch.c -o TerminalMismatch.o TerminalMismatch.c:40:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 1 warning generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Translate.c -o Translate.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/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Utils.c -o Utils.o Utils.c:222:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ Utils.c:335:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ Utils.c:756:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 3 warnings generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c VectorSums.c -o VectorSums.o VectorSums.c:82:6: warning: unused variable 'nthreads' [-Wunused-variable] int nthreads = asInteger(nThreads); ^ 1 warning generated. clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/XVector/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c XVector_stubs.c -o XVector_stubs.o clang -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o DECIPHER.so AlignProfiles.o AssignIndels.o Biostrings_stubs.o CalculateDeltaG.o CalculateFISH.o ChainSegments.o Cluster.o ClusterML.o ClusterMP.o Compositions.o Compression.o ConsensusSequence.o DesignProbes.o Diff.o DistanceMatrix.o EnumerateSequence.o ExpandAmbiguities.o FindFrameshifts.o GeneFinding.o GetPools.o Import.o InformationContent.o IntDist.o ManipulateXStringSet.o MeltPolymer.o MovingAverage.o NNLS.o Order.o PairwiseAlignment.o PredictDBN.o PredictHEC.o R_init_decipher.o S4Vectors_stubs.o Search.o TerminalMismatch.o Translate.o Utils.o VectorSums.o XVector_stubs.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-DECIPHER/00new/DECIPHER/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 (DECIPHER)
DECIPHER.Rcheck/DECIPHER-Ex.timings
name | user | system | elapsed | |
AA_REDUCED | 0.052 | 0.008 | 0.060 | |
Add2DB | 0.787 | 0.076 | 0.870 | |
AdjustAlignment | 0.233 | 0.011 | 0.246 | |
AlignDB | 1.382 | 0.036 | 1.426 | |
AlignPairs | 4.601 | 0.127 | 4.775 | |
AlignProfiles | 1.168 | 0.063 | 1.252 | |
AlignSeqs | 208.231 | 5.083 | 215.190 | |
AlignSynteny | 3.544 | 0.047 | 3.627 | |
AlignTranslation | 15.675 | 0.348 | 16.254 | |
AmplifyDNA | 0.003 | 0.002 | 0.005 | |
Array2Matrix | 6.240 | 0.060 | 6.344 | |
BrowseDB | 0.048 | 0.004 | 0.053 | |
BrowseSeqs | 37.096 | 0.721 | 44.395 | |
CalculateEfficiencyArray | 0.019 | 0.007 | 0.027 | |
CalculateEfficiencyFISH | 0.006 | 0.001 | 0.007 | |
CalculateEfficiencyPCR | 0.006 | 0.000 | 0.006 | |
Clusterize | 6.816 | 0.862 | 7.772 | |
Codec | 1.257 | 0.038 | 1.305 | |
ConsensusSequence | 0.235 | 0.011 | 0.250 | |
Cophenetic | 0.224 | 0.006 | 0.232 | |
CorrectFrameshifts | 20.167 | 1.645 | 22.063 | |
CreateChimeras | 0.974 | 0.014 | 0.997 | |
DB2Seqs | 0.046 | 0.021 | 0.086 | |
DesignArray | 6.04 | 0.05 | 6.13 | |
DesignPrimers | 0.016 | 0.002 | 0.018 | |
DesignProbes | 0.014 | 0.002 | 0.016 | |
DesignSignatures | 0.017 | 0.002 | 0.019 | |
DetectRepeats | 21.115 | 0.232 | 21.496 | |
DigestDNA | 0.213 | 0.012 | 0.228 | |
Disambiguate | 0.064 | 0.003 | 0.068 | |
DistanceMatrix | 0.057 | 0.009 | 0.066 | |
ExtractGenes | 37.247 | 1.256 | 38.762 | |
FindChimeras | 0.082 | 0.005 | 0.089 | |
FindGenes | 35.062 | 1.356 | 36.700 | |
FindNonCoding | 59.727 | 5.599 | 65.904 | |
FindSynteny | 1.900 | 0.083 | 2.000 | |
FormGroups | 0.074 | 0.005 | 0.080 | |
Genes-class | 34.526 | 1.574 | 36.430 | |
HEC_MI | 0.275 | 0.014 | 0.295 | |
IdConsensus | 0.789 | 0.134 | 0.931 | |
IdLengths | 0.038 | 0.009 | 0.047 | |
IdTaxa | 9.400 | 0.472 | 9.954 | |
IdentifyByRank | 0.037 | 0.004 | 0.041 | |
IndexSeqs | 0.840 | 0.008 | 0.853 | |
InvertedIndex-class | 0.477 | 0.014 | 0.494 | |
LearnNonCoding | 121.524 | 5.349 | 127.854 | |
LearnTaxa | 6.192 | 1.941 | 8.231 | |
MIQS | 0.043 | 0.008 | 0.052 | |
MMLSUM | 0.008 | 0.011 | 0.020 | |
MODELS | 0.001 | 0.000 | 0.002 | |
MapCharacters | 85.299 | 1.501 | 93.596 | |
MaskAlignment | 0.565 | 0.023 | 0.592 | |
MeltDNA | 0.079 | 0.007 | 0.086 | |
NNLS | 0.003 | 0.001 | 0.005 | |
NonCoding-class | 0.063 | 0.015 | 0.079 | |
NonCodingRNA | 0.123 | 0.032 | 0.162 | |
OrientNucleotides | 0.503 | 0.011 | 0.519 | |
PFASUM | 0.008 | 0.004 | 0.013 | |
PredictDBN | 0.009 | 0.003 | 0.012 | |
PredictHEC | 0.282 | 0.014 | 0.297 | |
RESTRICTION_ENZYMES | 0.003 | 0.007 | 0.010 | |
ReadDendrogram | 0.023 | 0.002 | 0.025 | |
RemoveGaps | 0.014 | 0.001 | 0.015 | |
ScoreAlignment | 6.390 | 0.249 | 6.679 | |
SearchDB | 0.062 | 0.005 | 0.067 | |
SearchIndex | 1.024 | 0.043 | 1.071 | |
Seqs2DB | 0.117 | 0.004 | 0.122 | |
StaggerAlignment | 15.341 | 1.097 | 16.596 | |
Synteny-class | 2.731 | 0.057 | 2.808 | |
Taxa-class | 11.490 | 0.586 | 12.172 | |
TerminalChar | 0.008 | 0.001 | 0.010 | |
TileSeqs | 5.225 | 0.048 | 5.307 | |
TrainingSet_16S | 2.746 | 0.057 | 2.828 | |
TreeLine | 11.128 | 0.429 | 11.629 | |
TrimDNA | 0.155 | 0.013 | 0.171 | |
WriteDendrogram | 0.003 | 0.000 | 0.004 | |
WriteGenes | 36.945 | 1.799 | 39.015 | |
deltaGrules | 0.009 | 0.008 | 0.018 | |
deltaGrulesRNA | 0.024 | 0.009 | 0.033 | |
deltaHrules | 0.020 | 0.008 | 0.029 | |
deltaHrulesRNA | 0.020 | 0.009 | 0.030 | |
deltaSrules | 0.070 | 0.006 | 0.076 | |
deltaSrulesRNA | 0.016 | 0.008 | 0.025 | |