Erik Wright
| Snapshot Date: 2026-05-04 13:40 -0400 (Mon, 04 May 2026) |
| git_url: https://git.bioconductor.org/packages/DECIPHER |
| git_branch: RELEASE_3_23 |
| git_last_commit: 7082754 |
| git_last_commit_date: 2026-04-28 08:35:55 -0400 (Tue, 28 Apr 2026) |
| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-05-05 11:37 -0400 (Tue, 05 May 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.4 LTS) | x86_64 | 4.6.0 RC (2026-04-17 r89917) -- "Because it was There" | 4989 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.6.0 Patched (2026-04-24 r89963) -- "Because it was There" | 4719 |
| 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 543/2418 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| DECIPHER 3.8.0 (landing page) Erik Wright
| nebbiolo1 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | ERROR | OK | |||||||||
| See other builds for DECIPHER in R Universe. | ||||||||||||||
|
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: 3.8.0 |
| 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_3.8.0.tar.gz |
| StartedAt: 2026-05-04 19:11:20 -0400 (Mon, 04 May 2026) |
| EndedAt: 2026-05-04 19:14:12 -0400 (Mon, 04 May 2026) |
| EllapsedTime: 171.9 seconds |
| RetCode: 1 |
| Status: ERROR |
| CheckDir: DECIPHER.Rcheck |
| Warnings: NA |
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###
### 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_3.8.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.23-bioc/meat/DECIPHER.Rcheck’
* using R version 4.6.0 Patched (2026-04-24 r89963)
* using platform: aarch64-apple-darwin23
* R was compiled by
Apple clang version 17.0.0 (clang-1700.3.19.1)
GNU Fortran (GCC) 14.2.0
* running under: macOS Tahoe 26.3.1
* using session charset: UTF-8
* current time: 2026-05-04 23:11:20 UTC
* using option ‘--no-vignettes’
* checking for file ‘DECIPHER/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘DECIPHER’ version ‘3.8.0’
* 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 17.0.0 (clang-1700.6.4.2)’
* used SDK: ‘MacOSX26.2.sdk’
* checking installed package size ... INFO
installed size is 12.9Mb
sub-directories of 1Mb or more:
R 1.4Mb
data 7.5Mb
extdata 2.9Mb
* 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 ‘.NNI’ with different
formal arguments
Treeline: multiple local function definitions for ‘.minimize’ with
different formal arguments
Undefined global functions or variables:
deltaGrulesRNA deltaHrules deltaHrulesRNA
* checking Rd files ... OK
* 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 ... INFO
Note: information on .o files is not available
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ...sh: line 1: 67657 Bus error: 10 LANGUAGE=en _R_CHECK_INTERNALS2_=1 R_LIBS=/var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmpa2ZUpM/RLIBS_f4db2368ff6b R_ENVIRON_USER='' R_LIBS_USER='NULL' R_LIBS_SITE='NULL' '/Library/Frameworks/R.framework/Resources/bin/R' --vanilla > 'DECIPHER-Ex.Rout' 2>&1 < 'DECIPHER-Ex.R'
ERROR
Running examples in ‘DECIPHER-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: DetectRepeats
> ### Title: Detect Repeats in a Sequence
> ### Aliases: DetectRepeats
>
> ### ** Examples
>
> fas <- system.file("extdata", "Human_huntingtin_cds.fas.gz", package="DECIPHER")
> dna <- readDNAStringSet(fas)
>
> x <- DetectRepeats(dna)
================================================================================
Time difference of 1.82 secs
> x
Index Begin End Left Right Score
1 1 53 181 53, 62, .... 61, 70, .... 50.20206
>
> # number of tandem repeats
> lengths(x[, "Left"])
[1] 14
>
> # average periodicity of tandem repeats
> per <- mapply(function(a, b) b - a + 1,
+ x[, "Left"],
+ x[, "Right"],
+ SIMPLIFY=FALSE)
> sapply(per, mean)
[1] 9.214286
>
> # extract a tandem repeat
> i <- 1
> reps <- extractAt(dna[[x[i, "Index"]]],
+ IRanges(x[[i, "Left"]], x[[i, "Right"]]))
> reps
DNAStringSet object of length 14:
width seq
[1] 9 AGCAGCAGC
[2] 9 AGCAGCAGC
[3] 9 AGCAGCAGC
[4] 9 AGCAGCAGC
[5] 9 AGCAGCAGC
... ... ...
[10] 9 CGCCGCCGC
[11] 9 CTCCTCAGC
[12] 9 TTCCTCAGC
[13] 9 CGCCGCCGC
[14] 12 AGGCACAGCCGC
> reps <- AlignSeqs(reps, verbose=FALSE) # align the repeats
> reps
DNAStringSet object of length 14:
width seq
[1] 12 ---AGCAGCAGC
[2] 12 ---AGCAGCAGC
[3] 12 ---AGCAGCAGC
[4] 12 ---AGCAGCAGC
[5] 12 ---AGCAGCAGC
... ... ...
[10] 12 ---CGCCGCCGC
[11] 12 ---CTCCTCAGC
[12] 12 ---TTCCTCAGC
[13] 12 ---CGCCGCCGC
[14] 12 AGGCACAGCCGC
> BrowseSeqs(reps)
>
> # highlight tandem repeats in the sequence
> colors <- c("deeppink", "deepskyblue")
> colors <- lapply(colors, function(x) col2rgb(x)/255)
> cols <- vector("list", length(dna))
> for (i in seq_along(cols)) {
+ cols[[i]] <- matrix(0, nrow=3, ncol=width(dna)[i])
+ for (j in which(x[, "Index"] == i)) {
+ left <- x[[j, "Left"]]
+ right <- x[[j, "Right"]]
+ n <- 0
+ for (k in seq_along(left)) {
+ r <- left[k]:right[k]
+ n <- n + 1
+ if (n > length(colors))
+ n <- 1
+ cols[[i]][, r] <- colors[[n]]
+ }
+ }
+ }
> BrowseSeqs(dna, patterns=cols)
>
> # find interspersed (rather than tandem) repeats
> data(yeastSEQCHR1)
> chr1 <- DNAStringSet(yeastSEQCHR1)
>
> if (require("RSQLite", quietly=TRUE)) {
+ z <- DetectRepeats(chr1, type="interspersed")
+ z
+ }
*** caught bus error ***
address 0x77bbffffc, cause 'invalid alignment'
Traceback:
1: FindSynteny(dbConn, identifier = c("1", "1"), verbose = FALSE, ...)
2: DetectRepeats(chr1, type = "interspersed")
An irrecoverable exception occurred. R is aborting now ...
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
AlignSeqs 64.050 0.193 64.337
BrowseSeqs 12.334 0.164 12.593
CorrectFrameshifts 7.478 0.193 7.953
Cophenetic 7.097 0.076 7.321
* 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 ERROR, 1 NOTE
See
‘/Users/biocbuild/bbs-3.23-bioc/meat/DECIPHER.Rcheck/00check.log’
for details.
DECIPHER.Rcheck/00install.out
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###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL DECIPHER
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.6/Resources/library’
* installing *source* package ‘DECIPHER’ ...
** this is package ‘DECIPHER’ version ‘3.8.0’
** using staged installation
** libs
using C compiler: ‘Apple clang version 17.0.0 (clang-1700.6.4.2)’
using SDK: ‘MacOSX26.2.sdk’
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c AlignProfiles.c -o AlignProfiles.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c AssignIndels.c -o AssignIndels.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Biostrings_stubs.c -o Biostrings_stubs.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c CalculateDeltaG.c -o CalculateDeltaG.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/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]
26 | -11.5, -7.8, -7, -8.3,
| ^~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:27:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
27 | -10.4, -12.8, -16.3, -9.1,
| ^~~~~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:28:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
28 | -8.6, -8, -9.3, -5.9,
| ^~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:29:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
29 | -7.8, -5.5, -9, -7.8
| ^~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:32:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
32 | -36.4, -21.6, -19.7, -23.9,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:33:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
33 | -28.4, -31.9, -47.1, -23.5,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:34:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
34 | -22.9, -17.1, -23.2, -12.3,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:35:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
35 | -23.2, -13.5, -26.1, -21.9
| ^~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:38:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
38 | -7.9, -8.4, -7.8, -7.2,
| ^~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:39:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
39 | -8.5, -8, -10.6, -7.8,
| ^~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:40:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
40 | -8.2, -9.8, -8, -8.4,
| ^~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:41:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
41 | -7.2, -8.2, -8.5, -7.9
| ^~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:44:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
44 | -22.2, -22.4, -21, -20.4,
| ^~~~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:45:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
45 | -22.7, -19.9, -27.2, -21,
| ^~~~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:46:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
46 | -22.2, -24.4, -19.9, -22.4,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:47:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
47 | -21.3, -22.2, -22.7, -22.2
| ^~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:50:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
50 | -6.6, -10.17, -7.65, -5.76,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:51:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
51 | -10.56, -12.21, -7.95, -7.65,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:52:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
52 | -13.37, -14.21, -12.21, -10.17,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:53:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
53 | -8.11, -13.37, -10.56, -6.6
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:56:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
56 | -18.38, -26.03, -19.18, -15.67,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:57:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
57 | -28.25, -30.02, -19.18, -19.18,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:58:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
58 | -35.68, -34.85, -30.02, -26.03,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
CalculateFISH.c:59:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
59 | -22.59, -35.68, -28.25, -18.38
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
24 warnings generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c ChainSegments.c -o ChainSegments.o
ChainSegments.c:666:6: warning: unused variable 'nthreads' [-Wunused-variable]
666 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
1 warning generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Cluster.c -o Cluster.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c ClusterME.c -o ClusterME.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c ClusterML.c -o ClusterML.o
ClusterML.c:221:12: warning: variable length array folded to constant array as an extension [-Wgnu-folding-constant]
221 | double L1[s0], L2[s0];
| ^~
ClusterML.c:221:20: warning: variable length array folded to constant array as an extension [-Wgnu-folding-constant]
221 | double L1[s0], L2[s0];
| ^~
ClusterML.c:448:12: warning: variable length array folded to constant array as an extension [-Wgnu-folding-constant]
448 | double L1[s0], L2[s0];
| ^~
ClusterML.c:448:20: warning: variable length array folded to constant array as an extension [-Wgnu-folding-constant]
448 | double L1[s0], L2[s0];
| ^~
ClusterML.c:668:12: warning: variable length array folded to constant array as an extension [-Wgnu-folding-constant]
668 | double L1[s0], L2[s0];
| ^~
ClusterML.c:668:20: warning: variable length array folded to constant array as an extension [-Wgnu-folding-constant]
668 | double L1[s0], L2[s0];
| ^~
ClusterML.c:895:12: warning: variable length array folded to constant array as an extension [-Wgnu-folding-constant]
895 | double L1[s0], L2[s0];
| ^~
ClusterML.c:895:20: warning: variable length array folded to constant array as an extension [-Wgnu-folding-constant]
895 | double L1[s0], L2[s0];
| ^~
ClusterML.c:1887:6: warning: unused variable 'nthreads' [-Wunused-variable]
1887 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
9 warnings generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c ClusterMP.c -o ClusterMP.o
ClusterMP.c:112:6: warning: unused variable 'nthreads' [-Wunused-variable]
112 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
1 warning generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Compositions.c -o Compositions.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Compression.c -o Compression.o
Compression.c:521:6: warning: unused variable 'nthreads' [-Wunused-variable]
521 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
Compression.c:1408:6: warning: unused variable 'nthreads' [-Wunused-variable]
1408 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
Compression.c:1706:6: warning: unused variable 'nthreads' [-Wunused-variable]
1706 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
3 warnings generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c ConsensusSequence.c -o ConsensusSequence.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c DesignProbes.c -o DesignProbes.o
DesignProbes.c:72:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
72 | -0.816507461,-2.5401714,-1.647430026,-1.184658548
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:73:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
73 | ,-1.854740485,-2.479102613,-2.826248182,-1.647430026
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:74:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
74 | ,-2.48761723,-4.694133177,-2.479102613,-2.5401714
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:75:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
75 | ,-0.495794417,-2.48761723,-1.854740485,-0.816507461
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:79:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
79 | -0.141370102,-0.439805276,-0.285236035,-0.205111781
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:80:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
80 | ,-0.321129768,-0.429231826,-0.48933661,-0.285236035
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:81:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
81 | ,-0.430706047,-0.812742218,-0.429231826,-0.439805276
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:82:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
82 | ,-0.085841845,-0.430706047,-0.321129768,-0.141370102
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:86:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
86 | 0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:87:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
87 | ,1.545032445,1.254355018,1.491691514,1.329138183
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:88:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
88 | ,1.150635633,0.582415494,1.075877275,1.187937642
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:89:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
89 | ,1.203555051,1.001540513,0.864287715,0.717125848
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:90:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
90 | ,0.75,0.65,0.69,0.78
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:86:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
86 | 0,0,0,0
| ^~~~~~~
| {
87 | ,1.545032445,1.254355018,1.491691514,1.329138183
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
88 | ,1.150635633,0.582415494,1.075877275,1.187937642
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
89 | ,1.203555051,1.001540513,0.864287715,0.717125848
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
90 | ,0.75,0.65,0.69,0.78
| ~~~~~~~~~~~~~~~~~~~~
| }
DesignProbes.c:91:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
91 | ,0.630005348,0.18553379,0.730763505,0.709272397
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:92:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
92 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:93:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
93 | ,0.856582783,-0.143236405,0.716721488,0.603652831
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:94:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
94 | ,0.851622883,0.653168672,0.676545316,1.187937642
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:95:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
95 | ,0.75,0.65,0.69,0.78
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:91:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
91 | ,0.630005348,0.18553379,0.730763505,0.709272397
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
92 | ,0,0,0,0
| ~~~~~~~~
93 | ,0.856582783,-0.143236405,0.716721488,0.603652831
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
94 | ,0.851622883,0.653168672,0.676545316,1.187937642
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
95 | ,0.75,0.65,0.69,0.78
| ~~~~~~~~~~~~~~~~~~~~
| }
DesignProbes.c:96:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
96 | ,1.231861002,0.746214538,1.087821916,0.989140748
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:97:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
97 | ,1.822113278,1.270687029,1.336192565,1.364584949
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:98:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
98 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:99:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
99 | ,1.443665704,1.385046493,1.256013166,1.329138183
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:100:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
100 | ,0.75,0.65,0.69,0.78
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:96:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
96 | ,1.231861002,0.746214538,1.087821916,0.989140748
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
97 | ,1.822113278,1.270687029,1.336192565,1.364584949
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
98 | ,0,0,0,0
| ~~~~~~~~
99 | ,1.443665704,1.385046493,1.256013166,1.329138183
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
100 | ,0.75,0.65,0.69,0.78
| ~~~~~~~~~~~~~~~~~~~~
| }
DesignProbes.c:101:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
101 | ,1.478009492,0.882097231,1.20450984,1.061002478
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:102:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
102 | ,1.496720812,0.846496194,0.967868114,0.989140748
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:103:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
103 | ,0.766581547,-0.024857805,0.50754303,0.709272397
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:104:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
104 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:105:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
105 | ,0.75,0.65,0.69,0.78
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:101:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
101 | ,1.478009492,0.882097231,1.20450984,1.061002478
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
102 | ,1.496720812,0.846496194,0.967868114,0.989140748
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
103 | ,0.766581547,-0.024857805,0.50754303,0.709272397
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
104 | ,0,0,0,0
| ~~~~~~~~
105 | ,0.75,0.65,0.69,0.78
| ~~~~~~~~~~~~~~~~~~~~
| }
DesignProbes.c:106:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
106 | ,0.75,0.65,0.69,0.78
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:107:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
107 | ,0.75,0.65,0.69,0.78
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:108:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
108 | ,0.75,0.65,0.69,0.78
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:109:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
109 | ,0.76,0.65,0.69,0.78
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:110:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
110 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:106:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
106 | ,0.75,0.65,0.69,0.78
| ^~~~~~~~~~~~~~~~~~~
| {
107 | ,0.75,0.65,0.69,0.78
| ~~~~~~~~~~~~~~~~~~~~
108 | ,0.75,0.65,0.69,0.78
| ~~~~~~~~~~~~~~~~~~~~
109 | ,0.76,0.65,0.69,0.78
| ~~~~~~~~~~~~~~~~~~~~
110 | ,0,0,0,0
| ~~~~~~~~
| }
DesignProbes.c:86:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
86 | 0,0,0,0
| ^~~~~~~
| {
87 | ,1.545032445,1.254355018,1.491691514,1.329138183
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
88 | ,1.150635633,0.582415494,1.075877275,1.187937642
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
89 | ,1.203555051,1.001540513,0.864287715,0.717125848
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
90 | ,0.75,0.65,0.69,0.78
| ~~~~~~~~~~~~~~~~~~~~
91 | ,0.630005348,0.18553379,0.730763505,0.709272397
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
92 | ,0,0,0,0
| ~~~~~~~~
93 | ,0.856582783,-0.143236405,0.716721488,0.603652831
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
94 | ,0.851622883,0.653168672,0.676545316,1.187937642
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
95 | ,0.75,0.65,0.69,0.78
| ~~~~~~~~~~~~~~~~~~~~
96 | ,1.231861002,0.746214538,1.087821916,0.989140748
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
97 | ,1.822113278,1.270687029,1.336192565,1.364584949
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
98 | ,0,0,0,0
| ~~~~~~~~
99 | ,1.443665704,1.385046493,1.256013166,1.329138183
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
100 | ,0.75,0.65,0.69,0.78
| ~~~~~~~~~~~~~~~~~~~~
101 | ,1.478009492,0.882097231,1.20450984,1.061002478
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
DesignProbes.c:111:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
111 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:112:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
112 | ,1.295827995,0.84547091,0.91019099,1.256013166
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:113:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
113 | ,0.755889609,0.241428373,0.396379912,0.676545316
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:114:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
114 | ,0.99945386,0.740323132,0.435659206,0.864287715
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:115:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
115 | ,0.65,0.55,0.48,0.69
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:111:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
111 | ,0,0,0,0
| ^~~~~~~
| {
112 | ,1.295827995,0.84547091,0.91019099,1.256013166
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
113 | ,0.755889609,0.241428373,0.396379912,0.676545316
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
114 | ,0.99945386,0.740323132,0.435659206,0.864287715
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
115 | ,0.65,0.55,0.48,0.69
| ~~~~~~~~~~~~~~~~~~~~
| }
DesignProbes.c:116:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
116 | ,0.843147406,0.101248351,0.49063599,0.50754303
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:117:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
117 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:118:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
118 | ,1.0651638,0.249934344,0.699352949,0.716721488
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:119:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
119 | ,0.871921533,0.59458138,0.396379912,1.075877275
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:120:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
120 | ,0.65,0.56,0.49,0.69
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:116:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
116 | ,0.843147406,0.101248351,0.49063599,0.50754303
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
117 | ,0,0,0,0
| ~~~~~~~~
118 | ,1.0651638,0.249934344,0.699352949,0.716721488
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
119 | ,0.871921533,0.59458138,0.396379912,1.075877275
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
120 | ,0.65,0.56,0.49,0.69
| ~~~~~~~~~~~~~~~~~~~~
| }
DesignProbes.c:121:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
121 | ,1.07531714,0.318907854,0.653287717,0.967868114
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:122:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
122 | ,1.099899195,0.730184613,0.661798984,1.336192565
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:123:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
123 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:124:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
124 | ,1.45897431,1.318532145,0.91019099,1.491691514
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:125:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
125 | ,0.65,0.56,0.49,0.69
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:121:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
121 | ,1.07531714,0.318907854,0.653287717,0.967868114
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
122 | ,1.099899195,0.730184613,0.661798984,1.336192565
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
123 | ,0,0,0,0
| ~~~~~~~~
124 | ,1.45897431,1.318532145,0.91019099,1.491691514
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
125 | ,0.65,0.56,0.49,0.69
| ~~~~~~~~~~~~~~~~~~~~
| }
DesignProbes.c:126:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
126 | ,1.242135174,0.894838095,1.108555445,1.20450984
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:127:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
127 | ,0.911428974,0.524430101,0.653287717,1.087821916
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:128:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
128 | ,0.503209827,0.274849491,0.49063599,0.730763505
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:129:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
129 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:130:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
130 | ,0.65,0.55,0.48,0.69
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:126:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
126 | ,1.242135174,0.894838095,1.108555445,1.20450984
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
127 | ,0.911428974,0.524430101,0.653287717,1.087821916
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
128 | ,0.503209827,0.274849491,0.49063599,0.730763505
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
129 | ,0,0,0,0
| ~~~~~~~~
130 | ,0.65,0.55,0.48,0.69
| ~~~~~~~~~~~~~~~~~~~~
| }
DesignProbes.c:131:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
131 | ,0.65,0.55,0.48,0.69
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:132:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
132 | ,0.65,0.56,0.49,0.69
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:133:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
133 | ,0.65,0.56,0.49,0.69
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:134:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
134 | ,0.65,0.55,0.48,0.69
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:135:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
135 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:131:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
131 | ,0.65,0.55,0.48,0.69
| ^~~~~~~~~~~~~~~~~~~
| {
132 | ,0.65,0.56,0.49,0.69
| ~~~~~~~~~~~~~~~~~~~~
133 | ,0.65,0.56,0.49,0.69
| ~~~~~~~~~~~~~~~~~~~~
134 | ,0.65,0.55,0.48,0.69
| ~~~~~~~~~~~~~~~~~~~~
135 | ,0,0,0,0
| ~~~~~~~~
| }
DesignProbes.c:111:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
111 | ,0,0,0,0
| ^~~~~~~
| {
112 | ,1.295827995,0.84547091,0.91019099,1.256013166
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
113 | ,0.755889609,0.241428373,0.396379912,0.676545316
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
114 | ,0.99945386,0.740323132,0.435659206,0.864287715
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
115 | ,0.65,0.55,0.48,0.69
| ~~~~~~~~~~~~~~~~~~~~
116 | ,0.843147406,0.101248351,0.49063599,0.50754303
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
117 | ,0,0,0,0
| ~~~~~~~~
118 | ,1.0651638,0.249934344,0.699352949,0.716721488
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
119 | ,0.871921533,0.59458138,0.396379912,1.075877275
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
120 | ,0.65,0.56,0.49,0.69
| ~~~~~~~~~~~~~~~~~~~~
121 | ,1.07531714,0.318907854,0.653287717,0.967868114
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
122 | ,1.099899195,0.730184613,0.661798984,1.336192565
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
123 | ,0,0,0,0
| ~~~~~~~~
124 | ,1.45897431,1.318532145,0.91019099,1.491691514
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
125 | ,0.65,0.56,0.49,0.69
| ~~~~~~~~~~~~~~~~~~~~
126 | ,1.242135174,0.894838095,1.108555445,1.20450984
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
DesignProbes.c:136:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
136 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:137:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
137 | ,1.100661785,0.969784756,1.318532145,1.385046493
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:138:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
138 | ,0.565895968,-0.060347902,0.59458138,0.653168672
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:139:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
139 | ,0.782168488,0.788161238,0.740323132,1.001540513
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:140:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
140 | ,0.68,0.46,0.55,0.65
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:136:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
136 | ,0,0,0,0
| ^~~~~~~
| {
137 | ,1.100661785,0.969784756,1.318532145,1.385046493
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
138 | ,0.565895968,-0.060347902,0.59458138,0.653168672
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
139 | ,0.782168488,0.788161238,0.740323132,1.001540513
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
140 | ,0.68,0.46,0.55,0.65
| ~~~~~~~~~~~~~~~~~~~~
| }
DesignProbes.c:141:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
141 | ,0.468913405,-0.469855984,0.274849491,-0.024857805
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:142:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
142 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:143:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
143 | ,0.258195131,-0.70438632,0.249934344,-0.143236405
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:144:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
144 | ,0.502914193,-0.060347902,0.241428373,0.582415494
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:145:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
145 | ,0.68,0.47,0.56,0.65
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:141:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
141 | ,0.468913405,-0.469855984,0.274849491,-0.024857805
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
142 | ,0,0,0,0
| ~~~~~~~~
143 | ,0.258195131,-0.70438632,0.249934344,-0.143236405
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
144 | ,0.502914193,-0.060347902,0.241428373,0.582415494
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
145 | ,0.68,0.47,0.56,0.65
| ~~~~~~~~~~~~~~~~~~~~
| }
DesignProbes.c:146:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
146 | ,0.584083861,0.258975454,0.524430101,0.846496194
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:147:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
147 | ,0.968040559,0.797499702,0.730184613,1.270687029
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:148:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
148 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:149:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
149 | ,1.081040749,0.969784756,0.84547091,1.254355018
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:150:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
150 | ,0.68,0.47,0.56,0.65
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:146:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
146 | ,0.584083861,0.258975454,0.524430101,0.846496194
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
147 | ,0.968040559,0.797499702,0.730184613,1.270687029
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
148 | ,0,0,0,0
| ~~~~~~~~
149 | ,1.081040749,0.969784756,0.84547091,1.254355018
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
150 | ,0.68,0.47,0.56,0.65
| ~~~~~~~~~~~~~~~~~~~~
| }
DesignProbes.c:151:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
151 | ,1.048553951,0.728354541,0.894838095,0.882097231
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:152:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
152 | ,0.88611252,0.258975454,0.318907854,0.746214538
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:153:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
153 | ,0.239520858,-0.469855984,0.101248351,0.18553379
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:154:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
154 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:155:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
155 | ,0.68,0.46,0.55,0.65
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:151:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
151 | ,1.048553951,0.728354541,0.894838095,0.882097231
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
152 | ,0.88611252,0.258975454,0.318907854,0.746214538
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
153 | ,0.239520858,-0.469855984,0.101248351,0.18553379
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
154 | ,0,0,0,0
| ~~~~~~~~
155 | ,0.68,0.46,0.55,0.65
| ~~~~~~~~~~~~~~~~~~~~
| }
DesignProbes.c:156:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
156 | ,0.68,0.46,0.55,0.65
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:157:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
157 | ,0.68,0.47,0.56,0.65
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:158:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
158 | ,0.68,0.47,0.56,0.65
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:159:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
159 | ,0.68,0.46,0.55,0.65
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:160:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
160 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:156:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
156 | ,0.68,0.46,0.55,0.65
| ^~~~~~~~~~~~~~~~~~~
| {
157 | ,0.68,0.47,0.56,0.65
| ~~~~~~~~~~~~~~~~~~~~
158 | ,0.68,0.47,0.56,0.65
| ~~~~~~~~~~~~~~~~~~~~
159 | ,0.68,0.46,0.55,0.65
| ~~~~~~~~~~~~~~~~~~~~
160 | ,0,0,0,0
| ~~~~~~~~
| }
DesignProbes.c:136:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
136 | ,0,0,0,0
| ^~~~~~~
| {
137 | ,1.100661785,0.969784756,1.318532145,1.385046493
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
138 | ,0.565895968,-0.060347902,0.59458138,0.653168672
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
139 | ,0.782168488,0.788161238,0.740323132,1.001540513
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
140 | ,0.68,0.46,0.55,0.65
| ~~~~~~~~~~~~~~~~~~~~
141 | ,0.468913405,-0.469855984,0.274849491,-0.024857805
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
142 | ,0,0,0,0
| ~~~~~~~~
143 | ,0.258195131,-0.70438632,0.249934344,-0.143236405
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
144 | ,0.502914193,-0.060347902,0.241428373,0.582415494
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
145 | ,0.68,0.47,0.56,0.65
| ~~~~~~~~~~~~~~~~~~~~
146 | ,0.584083861,0.258975454,0.524430101,0.846496194
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
147 | ,0.968040559,0.797499702,0.730184613,1.270687029
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
148 | ,0,0,0,0
| ~~~~~~~~
149 | ,1.081040749,0.969784756,0.84547091,1.254355018
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
150 | ,0.68,0.47,0.56,0.65
| ~~~~~~~~~~~~~~~~~~~~
151 | ,1.048553951,0.728354541,0.894838095,0.882097231
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
DesignProbes.c:161:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
161 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:162:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
162 | ,1.566899704,1.081040749,1.45897431,1.443665704
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:163:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
163 | ,0.976725675,0.502914193,0.871921533,0.851622883
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:164:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
164 | ,1.482046826,0.782168488,0.99945386,1.203555051
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:165:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
165 | ,0.85,0.68,0.65,0.76
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:161:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
161 | ,0,0,0,0
| ^~~~~~~
| {
162 | ,1.566899704,1.081040749,1.45897431,1.443665704
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
163 | ,0.976725675,0.502914193,0.871921533,0.851622883
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
164 | ,1.482046826,0.782168488,0.99945386,1.203555051
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
165 | ,0.85,0.68,0.65,0.76
| ~~~~~~~~~~~~~~~~~~~~
| }
DesignProbes.c:166:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
166 | ,0.798628781,0.239520858,0.503209827,0.766581547
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:167:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
167 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:168:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
168 | ,1.141098246,0.258195131,1.0651638,0.856582783
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:169:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
169 | ,0.976725675,0.565895968,0.755889609,1.150635633
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:170:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
170 | ,0.85,0.68,0.65,0.75
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:166:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
166 | ,0.798628781,0.239520858,0.503209827,0.766581547
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
167 | ,0,0,0,0
| ~~~~~~~~
168 | ,1.141098246,0.258195131,1.0651638,0.856582783
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
169 | ,0.976725675,0.565895968,0.755889609,1.150635633
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
170 | ,0.85,0.68,0.65,0.75
| ~~~~~~~~~~~~~~~~~~~~
| }
DesignProbes.c:171:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
171 | ,1.125403302,0.88611252,0.911428974,1.496720812
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:172:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
172 | ,1.68169282,0.968040559,1.099899195,1.822113278
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:173:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
173 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:174:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
174 | ,1.566899704,1.100661785,1.295827995,1.545032445
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:175:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
175 | ,0.85,0.68,0.65,0.75
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:171:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
171 | ,1.125403302,0.88611252,0.911428974,1.496720812
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
172 | ,1.68169282,0.968040559,1.099899195,1.822113278
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
173 | ,0,0,0,0
| ~~~~~~~~
174 | ,1.566899704,1.100661785,1.295827995,1.545032445
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
175 | ,0.85,0.68,0.65,0.75
| ~~~~~~~~~~~~~~~~~~~~
| }
DesignProbes.c:176:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
176 | ,1.35948517,1.048553951,1.242135174,1.478009492
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:177:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
177 | ,1.125403302,0.584083861,1.07531714,1.231861002
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:178:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
178 | ,0.798628781,0.468913405,0.843147406,0.630005348
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:179:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
179 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:180:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
180 | ,0.85,0.68,0.65,0.75
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:176:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
176 | ,1.35948517,1.048553951,1.242135174,1.478009492
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
177 | ,1.125403302,0.584083861,1.07531714,1.231861002
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
178 | ,0.798628781,0.468913405,0.843147406,0.630005348
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
179 | ,0,0,0,0
| ~~~~~~~~
180 | ,0.85,0.68,0.65,0.75
| ~~~~~~~~~~~~~~~~~~~~
| }
DesignProbes.c:181:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
181 | ,0.85,0.68,0.65,0.75
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:182:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
182 | ,0.85,0.68,0.65,0.75
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:183:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
183 | ,0.85,0.68,0.65,0.75
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:184:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
184 | ,0.85,0.68,0.65,0.75
| ^~~~~~~~~~~~~~~~~~~
| { }
DesignProbes.c:185:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
185 | ,0,0,0,0
| ^~~~~~~
| { }
DesignProbes.c:181:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
181 | ,0.85,0.68,0.65,0.75
| ^~~~~~~~~~~~~~~~~~~
| {
182 | ,0.85,0.68,0.65,0.75
| ~~~~~~~~~~~~~~~~~~~~
183 | ,0.85,0.68,0.65,0.75
| ~~~~~~~~~~~~~~~~~~~~
184 | ,0.85,0.68,0.65,0.75
| ~~~~~~~~~~~~~~~~~~~~
185 | ,0,0,0,0
| ~~~~~~~~
| }
DesignProbes.c:161:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
161 | ,0,0,0,0
| ^~~~~~~
| {
162 | ,1.566899704,1.081040749,1.45897431,1.443665704
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
163 | ,0.976725675,0.502914193,0.871921533,0.851622883
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
164 | ,1.482046826,0.782168488,0.99945386,1.203555051
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
165 | ,0.85,0.68,0.65,0.76
| ~~~~~~~~~~~~~~~~~~~~
166 | ,0.798628781,0.239520858,0.503209827,0.766581547
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
167 | ,0,0,0,0
| ~~~~~~~~
168 | ,1.141098246,0.258195131,1.0651638,0.856582783
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
169 | ,0.976725675,0.565895968,0.755889609,1.150635633
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
170 | ,0.85,0.68,0.65,0.75
| ~~~~~~~~~~~~~~~~~~~~
171 | ,1.125403302,0.88611252,0.911428974,1.496720812
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
172 | ,1.68169282,0.968040559,1.099899195,1.822113278
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
173 | ,0,0,0,0
| ~~~~~~~~
174 | ,1.566899704,1.100661785,1.295827995,1.545032445
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
175 | ,0.85,0.68,0.65,0.75
| ~~~~~~~~~~~~~~~~~~~~
176 | ,1.35948517,1.048553951,1.242135174,1.478009492
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
DesignProbes.c:59:6: warning: unused variable 'nthreads' [-Wunused-variable]
59 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
133 warnings generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Diff.c -o Diff.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c DistanceMatrix.c -o DistanceMatrix.o
DistanceMatrix.c:522:6: warning: unused variable 'nthreads' [-Wunused-variable]
522 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
DistanceMatrix.c:1118:6: warning: unused variable 'nthreads' [-Wunused-variable]
1118 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
2 warnings generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c EnumerateSequence.c -o EnumerateSequence.o
EnumerateSequence.c:298:6: warning: unused variable 'nthreads' [-Wunused-variable]
298 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
EnumerateSequence.c:871:6: warning: unused variable 'nthreads' [-Wunused-variable]
871 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
2 warnings generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c ExpandAmbiguities.c -o ExpandAmbiguities.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c FindFrameshifts.c -o FindFrameshifts.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c GeneFinding.c -o GeneFinding.o
GeneFinding.c:3261:6: warning: unused variable 'nthreads' [-Wunused-variable]
3261 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
GeneFinding.c:3338:6: warning: unused variable 'nthreads' [-Wunused-variable]
3338 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
GeneFinding.c:3395:6: warning: unused variable 'nthreads' [-Wunused-variable]
3395 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
3 warnings generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c GetPools.c -o GetPools.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Import.c -o Import.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c InformationContent.c -o InformationContent.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c IntDist.c -o IntDist.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c ManipulateXStringSet.c -o ManipulateXStringSet.o
ManipulateXStringSet.c:55:6: warning: unused variable 'nthreads' [-Wunused-variable]
55 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
ManipulateXStringSet.c:692:6: warning: unused variable 'nthreads' [-Wunused-variable]
692 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
ManipulateXStringSet.c:822:6: warning: unused variable 'nthreads' [-Wunused-variable]
822 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
ManipulateXStringSet.c:925:6: warning: unused variable 'nthreads' [-Wunused-variable]
925 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
ManipulateXStringSet.c:1019:6: warning: unused variable 'nthreads' [-Wunused-variable]
1019 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
5 warnings generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/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]
80 | -7.9,-8.4,-7.8,-7.2
| ^~~~~~~~~~~~~~~~~~~
| { }
MeltPolymer.c:81:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
81 | ,-8.5,-8.0,-10.6,-7.8
| ^~~~~~~~~~~~~~~~~~~~
| { }
MeltPolymer.c:82:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
82 | ,-8.2,-9.8,-8.0,-8.4
| ^~~~~~~~~~~~~~~~~~~
| { }
MeltPolymer.c:83:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
83 | ,-7.2,-8.2,-8.5,-7.9
| ^~~~~~~~~~~~~~~~~~~
| { }
MeltPolymer.c:89:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
89 | -22.2,-22.4,-21.0,-20.4
| ^~~~~~~~~~~~~~~~~~~~~~~
| { }
MeltPolymer.c:90:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
90 | ,-22.7,-19.9,-27.2,-21.0
| ^~~~~~~~~~~~~~~~~~~~~~~
| { }
MeltPolymer.c:91:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
91 | ,-22.2,-24.4,-19.9,-22.4
| ^~~~~~~~~~~~~~~~~~~~~~~
| { }
MeltPolymer.c:92:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
92 | ,-21.3,-22.2,-22.7,-22.2
| ^~~~~~~~~~~~~~~~~~~~~~~
| { }
8 warnings generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c MovingAverage.c -o MovingAverage.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c NNLS.c -o NNLS.o
NNLS.c:50:6: warning: unused variable 'nthreads' [-Wunused-variable]
50 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
1 warning generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Order.c -o Order.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c PairwiseAlignment.c -o PairwiseAlignment.o
PairwiseAlignment.c:188:6: warning: unused variable 'nthreads' [-Wunused-variable]
188 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
PairwiseAlignment.c:1034:6: warning: unused variable 'nthreads' [-Wunused-variable]
1034 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
2 warnings generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c PopulationGenetics.c -o PopulationGenetics.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c PredictDBN.c -o PredictDBN.o
PredictDBN.c:160:6: warning: unused variable 'nthreads' [-Wunused-variable]
160 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
1 warning generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c PredictHEC.c -o PredictHEC.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c R_init_decipher.c -o R_init_decipher.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c S4Vectors_stubs.c -o S4Vectors_stubs.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Search.c -o Search.o
Search.c:106:6: warning: unused variable 'nthreads' [-Wunused-variable]
106 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
1 warning generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c TerminalMismatch.c -o TerminalMismatch.o
TerminalMismatch.c:41:6: warning: unused variable 'nthreads' [-Wunused-variable]
41 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
1 warning generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Translate.c -o Translate.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Utils.c -o Utils.o
Utils.c:230:6: warning: unused variable 'nthreads' [-Wunused-variable]
230 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
Utils.c:343:6: warning: unused variable 'nthreads' [-Wunused-variable]
343 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
2 warnings generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c VectorSums.c -o VectorSums.o
VectorSums.c:83:6: warning: unused variable 'nthreads' [-Wunused-variable]
83 | int nthreads = asInteger(nThreads);
| ^~~~~~~~
1 warning generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Biostrings/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/S4Vectors/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/IRanges/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/XVector/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c XVector_stubs.c -o XVector_stubs.o
clang -arch arm64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o DECIPHER.so AlignProfiles.o AssignIndels.o Biostrings_stubs.o CalculateDeltaG.o CalculateFISH.o ChainSegments.o Cluster.o ClusterME.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 PopulationGenetics.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
installing to /Library/Frameworks/R.framework/Versions/4.6/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 | 0.012 | 0.001 | 0.013 | |
| Add2DB | 0.218 | 0.017 | 0.235 | |
| AdjustAlignment | 0.071 | 0.003 | 0.075 | |
| AlignDB | 0.518 | 0.008 | 0.529 | |
| AlignPairs | 2.051 | 0.022 | 2.085 | |
| AlignProfiles | 0.439 | 0.008 | 0.451 | |
| AlignSeqs | 64.050 | 0.193 | 64.337 | |
| AlignSynteny | 0.803 | 0.006 | 0.814 | |
| AlignTranslation | 4.912 | 0.042 | 4.975 | |
| AmplifyDNA | 0.001 | 0.001 | 0.002 | |
| Array2Matrix | 2.181 | 0.008 | 2.193 | |
| BLOSUM | 0.010 | 0.002 | 0.022 | |
| BrowseDB | 0.013 | 0.001 | 0.015 | |
| BrowseSeqs | 12.334 | 0.164 | 12.593 | |
| CalculateEfficiencyArray | 0.007 | 0.001 | 0.008 | |
| CalculateEfficiencyFISH | 0.001 | 0.000 | 0.002 | |
| CalculateEfficiencyPCR | 0.001 | 0.000 | 0.001 | |
| Clusterize | 3.121 | 0.050 | 3.172 | |
| Codec | 0.546 | 0.002 | 0.551 | |
| ConsensusSequence | 0.058 | 0.002 | 0.065 | |
| Cophenetic | 7.097 | 0.076 | 7.321 | |
| CorrectFrameshifts | 7.478 | 0.193 | 7.953 | |
| CreateChimeras | 0.228 | 0.002 | 0.230 | |
| DB2Seqs | 0.017 | 0.013 | 0.036 | |
| DesignArray | 2.229 | 0.008 | 2.244 | |
| DesignPrimers | 0.005 | 0.001 | 0.007 | |
| DesignProbes | 0.003 | 0.000 | 0.003 | |
| DesignSignatures | 0.003 | 0.000 | 0.003 | |