Multiple platform build/check report for BioC 3.21 - BUILD BIN results for SUITOR on palomino7

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.1 LTS)	x86_64	R Under development (unstable) (2025-03-13 r87965) -- "Unsuffered Consequences"	4742
palomino7	Windows Server 2022 Datacenter	x64	R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences"	4545
lconway	macOS 12.7.1 Monterey	x86_64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4576
kjohnson3	macOS 13.7.1 Ventura	arm64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4528
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4459
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*

BUILD BIN results for SUITOR on palomino7

To the developers/maintainers of the SUITOR package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SUITOR.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.

raw results

Summary

Package: SUITOR

Version: 1.9.0

Command: rm -rf SUITOR.buildbin-libdir && mkdir SUITOR.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=SUITOR.buildbin-libdir SUITOR_1.9.0.tar.gz

StartedAt: 2025-03-19 09:25:17 -0400 (Wed, 19 Mar 2025)

EndedAt: 2025-03-19 09:25:32 -0400 (Wed, 19 Mar 2025)

EllapsedTime: 15.4 seconds

RetCode: 0

Status: OK

PackageFile: SUITOR_1.9.0.zip

PackageFileSize: 315 KiB

Command output

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### Running command:
###
###   rm -rf SUITOR.buildbin-libdir && mkdir SUITOR.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=SUITOR.buildbin-libdir SUITOR_1.9.0.tar.gz
###
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* installing *source* package 'SUITOR' ...
** this is package 'SUITOR' version '1.9.0'
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 14.2.0'
gcc  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG     -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall -std=gnu2x  -mfpmath=sse -msse2 -mstackrealign   -c SUITOR_init.c -o SUITOR_init.o
gcc  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG     -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall -std=gnu2x  -mfpmath=sse -msse2 -mstackrealign   -c source.c -o source.o
source.c: In function 'dVec_alloc':
source.c:166:17: warning: old-style function definition [-Wold-style-definition]
  166 | static double * dVec_alloc(n, initFlag, initVal)
      |                 ^~~~~~~~~~
source.c: In function 'iVec_alloc':
source.c:185:14: warning: old-style function definition [-Wold-style-definition]
  185 | static int * iVec_alloc(n, initFlag, initVal)
      |              ^~~~~~~~~~
source.c: In function 'cVec_alloc':
source.c:203:15: warning: old-style function definition [-Wold-style-definition]
  203 | static char * cVec_alloc(n, initFlag, initVal)
      |               ^~~~~~~~~~
source.c: In function 'copy_dVec':
source.c:222:13: warning: old-style function definition [-Wold-style-definition]
  222 | static void copy_dVec(v, n, ret)
      |             ^~~~~~~~~
source.c: In function 'matrixMult':
source.c:233:13: warning: old-style function definition [-Wold-style-definition]
  233 | static void matrixMult(m1, m1_nr, m1_nc, m2, m2_nc, ret)
      |             ^~~~~~~~~~
source.c: In function 'which_max':
source.c:256:12: warning: old-style function definition [-Wold-style-definition]
  256 | static int which_max(v, n)
      |            ^~~~~~~~~
source.c: In function 'which_max_cols':
source.c:280:13: warning: old-style function definition [-Wold-style-definition]
  280 | static void which_max_cols(mat, nr, nc, ret)
      |             ^~~~~~~~~~~~~~
source.c: In function 'update_cons':
source.c:292:12: warning: old-style function definition [-Wold-style-definition]
  292 | static int update_cons(cons, cons_len, index, nc)
      |            ^~~~~~~~~~~
source.c: In function 'myStopFun':
source.c:323:12: warning: old-style function definition [-Wold-style-definition]
  323 | static int myStopFun(cons, cons_len, inc, hMat, hnr, hnc, maxIndex)
      |            ^~~~~~~~~
source.c: In function 'get_runif_vec':
source.c:348:13: warning: old-style function definition [-Wold-style-definition]
  348 | static void get_runif_vec(v, n, a, b)
      |             ^~~~~~~~~~~~~
source.c: In function 'get_idxMat0':
source.c:359:12: warning: old-style function definition [-Wold-style-definition]
  359 | static int get_idxMat0(idx, nr, nc, k, kfold)
      |            ^~~~~~~~~~~
source.c: In function 'loglike':
source.c:385:15: warning: old-style function definition [-Wold-style-definition]
  385 | static double loglike(input, log_input, input_k_hat, idxMat, delta_denom, len, which_idx)
      |               ^~~~~~~
source.c: In function 'replaceZeroVal_dVec':
source.c:416:13: warning: old-style function definition [-Wold-style-definition]
  416 | static void replaceZeroVal_dVec(v, n, minval)
      |             ^~~~~~~~~~~~~~~~~~~
source.c: In function 'get_delta_denom':
source.c:428:15: warning: old-style function definition [-Wold-style-definition]
  428 | static double get_delta_denom(v, n)
      |               ^~~~~~~~~~~~~~~
source.c: In function 'get_max':
source.c:444:15: warning: old-style function definition [-Wold-style-definition]
  444 | static double get_max(v, n)
      |               ^~~~~~~
source.c: In function 'my_update_H':
source.c:460:13: warning: old-style function definition [-Wold-style-definition]
  460 | static void my_update_H(pV, w, h, wnr, wnc, hnc)
      |             ^~~~~~~~~~~
source.c: In function 'my_update_W':
source.c:539:13: warning: old-style function definition [-Wold-style-definition]
  539 | static void my_update_W(pV, w, h, wnr, wnc, hnc)
      |             ^~~~~~~~~~~
source.c: In function 'my_update_brunet':
source.c:611:13: warning: old-style function definition [-Wold-style-definition]
  611 | static void my_update_brunet(i, x, w, h, str)
      |             ^~~~~~~~~~~~~~~~
source.c: In function 'get_init_WH':
source.c:636:13: warning: old-style function definition [-Wold-style-definition]
  636 | static void get_init_WH(runifVec, w, h, wlen, hlen, maxval)
      |             ^~~~~~~~~~~
source.c: In function 'call_nmf':
source.c:655:13: warning: old-style function definition [-Wold-style-definition]
  655 | static void call_nmf(mat, str)
      |             ^~~~~~~~
source.c: In function 'update_x_k':
source.c:714:13: warning: old-style function definition [-Wold-style-definition]
  714 | static void update_x_k(x_k, x_k_hat, idxMat, n)
      |             ^~~~~~~~~~
source.c: In function 'get_median':
source.c:838:15: warning: old-style function definition [-Wold-style-definition]
  838 | static double get_median(v, n)
      |               ^~~~~~~~~~
source.c: In function 'get_init_x_k':
source.c:863:13: warning: old-style function definition [-Wold-style-definition]
  863 | static void get_init_x_k(x, x_k, idxMat, nr, nc, tmpvec, minvalue)
      |             ^~~~~~~~~~~~
source.c: In function 'get_colsums':
source.c:916:13: warning: old-style function definition [-Wold-style-definition]
  916 | static void get_colsums(x, nr, nc, ret)
      |             ^~~~~~~~~~~
source.c: In function 'transpose':
source.c:934:13: warning: old-style function definition [-Wold-style-definition]
  934 | static void transpose(v, nr, nc, ret)
      |             ^~~~~~~~~
source.c: In function 'ECM_update_h':
source.c:949:13: warning: old-style function definition [-Wold-style-definition]
  949 | static void ECM_update_h(h1, h0, w0, x_k, hnr, hnc, wnr, wnc, xnr, xnc, vM, vN, vN2)
      |             ^~~~~~~~~~~~
source.c: In function 'ECM_update_w':
source.c:983:13: warning: old-style function definition [-Wold-style-definition]
  983 | static void ECM_update_w(w1, h1, w0, x_k, hnr, hnc, wnr, wnc, xnr, xnc, vM, vN, vN2)
      |             ^~~~~~~~~~~~
source.c: In function 'ECM_alg':
source.c:1017:12: warning: old-style function definition [-Wold-style-definition]
 1017 | static int ECM_alg(str)
      |            ^~~~~~~
source.c: In function 'init_wh_rank':
source.c:1093:13: warning: old-style function definition [-Wold-style-definition]
 1093 | static void init_wh_rank(str, rank)
      |             ^~~~~~~~~~~~
source.c: In function 'suitor_main':
source.c:1119:13: warning: old-style function definition [-Wold-style-definition]
 1119 | static void suitor_main(str)
      |             ^~~~~~~~~~~
source.c: In function 'init_logx':
source.c:1203:13: warning: old-style function definition [-Wold-style-definition]
 1203 | static void init_logx(x, logx, n)
      |             ^~~~~~~~~
source.c: In function 'NMFSTR_init':
source.c:1221:13: warning: old-style function definition [-Wold-style-definition]
 1221 | static void NMFSTR_init(str, iargs, dargs, xmat)
      |             ^~~~~~~~~~~
source.c: In function 'NMFSTR_free':
source.c:1311:13: warning: old-style function definition [-Wold-style-definition]
 1311 | static void NMFSTR_free(str, EMflag)
      |             ^~~~~~~~~~~
source.c: In function 'C_call_nmf':
source.c:1339:6: warning: old-style function definition [-Wold-style-definition]
 1339 | void C_call_nmf(mat, iargs, dargs, retW, retH)
      |      ^~~~~~~~~~
source.c: In function 'C_call_suitor':
source.c:1361:6: warning: old-style function definition [-Wold-style-definition]
 1361 | void C_call_suitor(mat, iargs, dargs, rankVec, kVec, ret_train, ret_test, ret_convVec, ret_EM_niterVec)
      |      ^~~~~~~~~~~~~
gcc -shared -s -static-libgcc -o SUITOR.dll tmp.def SUITOR_init.o source.o -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR
installing to E:/biocbuild/bbs-3.21-bioc/meat/SUITOR.buildbin-libdir/00LOCK-SUITOR/00new/SUITOR/libs/x64
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* MD5 sums
packaged installation of 'SUITOR' as SUITOR_1.9.0.zip
* DONE (SUITOR)