############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL SUITOR ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.21-bioc/R/site-library’ * installing *source* package ‘SUITOR’ ... ** this is package ‘SUITOR’ version ‘1.9.0’ ** using staged installation ** libs using C compiler: ‘gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’ gcc -std=gnu2x -I"/home/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c SUITOR_init.c -o SUITOR_init.o gcc -std=gnu2x -I"/home/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -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 -std=gnu2x -shared -L/home/biocbuild/bbs-3.21-bioc/R/lib -L/usr/local/lib -o SUITOR.so SUITOR_init.o source.o -L/home/biocbuild/bbs-3.21-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.21-bioc/R/site-library/00LOCK-SUITOR/00new/SUITOR/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 (SUITOR)