Wei Sun
| Snapshot Date: 2024-11-25 13:40 -0500 (Mon, 25 Nov 2024) |
| git_url: https://git.bioconductor.org/packages/genoCN |
| git_branch: devel |
| git_last_commit: 32e05e9 |
| git_last_commit_date: 2024-10-29 09:33:31 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2024-11-26 11:44 -0500 (Tue, 26 Nov 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4748 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4459 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4350 |
| kjohnson3 | macOS 13.6.5 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4108 |
| 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 806/2272 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| genoCN 1.59.0 (landing page) Wei Sun
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | ERROR | ERROR | skipped | |||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | ERROR | ERROR | skipped | skipped | |||||||||
| kjohnson3 | macOS 13.6.5 Ventura / arm64 | ERROR | ERROR | skipped | skipped | |||||||||
|
To the developers/maintainers of the genoCN package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/genoCN.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: genoCN |
| Version: 1.59.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data genoCN |
| StartedAt: 2024-11-25 16:25:47 -0500 (Mon, 25 Nov 2024) |
| EndedAt: 2024-11-25 16:25:48 -0500 (Mon, 25 Nov 2024) |
| EllapsedTime: 1.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data genoCN
###
##############################################################################
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* checking for file ‘genoCN/DESCRIPTION’ ... OK
* preparing ‘genoCN’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
-----------------------------------
* installing *source* package ‘genoCN’ ...
** using staged installation
** libs
using C compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
using SDK: ‘MacOSX11.3.sdk’
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c tnorm_mle.c -o tnorm_mle.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c utility.c -o utility.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c xCNV.c -o xCNV.o
xCNV.c:317:16: warning: unused variable 'K' [-Wunused-variable]
int L, N, M, K, i, z, k, nGtp, contam=*contamR, CNA=*CNAR;
^
xCNV.c:317:25: warning: unused variable 'k' [-Wunused-variable]
int L, N, M, K, i, z, k, nGtp, contam=*contamR, CNA=*CNAR;
^
xCNV.c:449:25: error: call to undeclared function 'Calloc'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration]
trans1 = (double**) Calloc(N, double*);
^
xCNV.c:449:35: error: expected expression
trans1 = (double**) Calloc(N, double*);
^
xCNV.c:450:39: error: expected expression
trans1[0] = (double*) Calloc(N*N, double);
^
xCNV.c:455:33: error: expected expression
v_old = (double *)Calloc(N, double);
^
xCNV.c:456:33: error: expected expression
v_new = (double *)Calloc(N, double);
^
xCNV.c:458:32: error: expected expression
path_m = (int**) Calloc(L, int*);
^
xCNV.c:459:36: error: expected expression
path_m[0] = (int*) Calloc(L*N, int);
^
xCNV.c:464:31: error: expected expression
tmp = (double *)Calloc(N, double);
^
xCNV.c:532:5: error: call to undeclared function 'Free'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration]
Free(v_old);
^
xCNV.c:532:5: note: did you mean 'free'?
/Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/malloc/_malloc.h:42:7: note: 'free' declared here
void free(void *);
^
xCNV.c:579:19: error: call to undeclared function 'Calloc'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration]
v = (double *)Calloc(N, double);
^
xCNV.c:579:29: error: expected expression
v = (double *)Calloc(N, double);
^
xCNV.c:581:35: error: expected expression
trans1 = (double**) Calloc(N, double*);
^
xCNV.c:582:39: error: expected expression
trans1[0] = (double*) Calloc(N*N, double);
^
xCNV.c:613:5: error: call to undeclared function 'Free'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration]
Free(v);
^
xCNV.c:652:19: error: call to undeclared function 'Calloc'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration]
v = (double *)Calloc(N, double);
^
xCNV.c:652:29: error: expected expression
v = (double *)Calloc(N, double);
^
xCNV.c:654:35: error: expected expression
trans1 = (double**) Calloc(N, double*);
^
xCNV.c:655:39: error: expected expression
trans1[0] = (double*) Calloc(N*N, double);
^
xCNV.c:683:3: error: call to undeclared function 'Free'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration]
Free(v);
^
fatal error: too many errors emitted, stopping now [-ferror-limit=]
2 warnings and 20 errors generated.
make: *** [xCNV.o] Error 1
ERROR: compilation failed for package ‘genoCN’
* removing ‘/private/var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T/RtmpJHlXHV/Rinstd87f53845660/genoCN’
-----------------------------------
ERROR: package installation failed