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### Running command:
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### /home/biocbuild/bbs-3.4-bioc/R/bin/R CMD INSTALL Cardinal
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* installing to library ‘/home/biocbuild/bbs-3.4-bioc/R/library’
* installing *source* package ‘Cardinal’ ...
** libs
gcc -I/home/biocbuild/bbs-3.4-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c dynamicAlign.c -o dynamicAlign.o
gcc -I/home/biocbuild/bbs-3.4-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c fastmap.c -o fastmap.o
fastmap.c: In function ‘choose_distant_objects’:
fastmap.c:59:24: warning: ‘o_b’ may be used uninitialized in this function [-Wmaybe-uninitialized]
pivot_objects->b[col] = o_b;
^
gcc -I/home/biocbuild/bbs-3.4-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c localMaxima.c -o localMaxima.o
g++ -I/home/biocbuild/bbs-3.4-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c pugixml.cpp -o pugixml.o
g++ -I/home/biocbuild/bbs-3.4-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c readAnalyze.cpp -o readAnalyze.o
readAnalyze.cpp: In function ‘SEXPREC* readAnalyzeHDR(SEXP)’:
readAnalyze.cpp:164:47: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
fread(&header, sizeof(struct dsr), 1, pfile);
^
readAnalyze.cpp: In function ‘SEXPREC* readAnalyzeT2M(SEXP, SEXP)’:
readAnalyze.cpp:261:49: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
fread(mz, sizeof(float), INTEGER(n)[0], pfile);
^
readAnalyze.cpp: In function ‘SEXPREC* readSimpleIntensityArray(const char*, int, int) [with CType = char; RType = int; SEXP = SEXPREC*]’:
readAnalyze.cpp:143:3: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
fread(tmp, sizeof(CType), nrow, pfile);
^
readAnalyze.cpp: In function ‘SEXPREC* readSimpleIntensityArray(const char*, int, int) [with CType = short int; RType = int; SEXP = SEXPREC*]’:
readAnalyze.cpp:143:3: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
readAnalyze.cpp: In function ‘SEXPREC* readSimpleIntensityArray(const char*, int, int) [with CType = int; RType = int; SEXP = SEXPREC*]’:
readAnalyze.cpp:143:3: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
readAnalyze.cpp: In function ‘SEXPREC* readSimpleIntensityArray(const char*, int, int) [with CType = float; RType = double; SEXP = SEXPREC*]’:
readAnalyze.cpp:143:3: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
readAnalyze.cpp: In function ‘SEXPREC* readSimpleIntensityArray(const char*, int, int) [with CType = double; RType = double; SEXP = SEXPREC*]’:
readAnalyze.cpp:143:3: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
g++ -I/home/biocbuild/bbs-3.4-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c readImzML.cpp -o readImzML.o
readImzML.cpp: In function ‘SEXPREC* readContinuousMzArray(const char*, double, int) [with CType = float; RType = double; SEXP = SEXPREC*]’:
readImzML.cpp:27:2: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
fread(tmp, sizeof(CType), length, pfile);
^
readImzML.cpp: In function ‘SEXPREC* readContinuousMzArray(const char*, double, int) [with CType = double; RType = double; SEXP = SEXPREC*]’:
readImzML.cpp:27:2: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
readImzML.cpp: In function ‘SEXPREC* readContinuousMzArray(const char*, double, int) [with CType = int; RType = int; SEXP = SEXPREC*]’:
readImzML.cpp:27:2: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
readImzML.cpp: In function ‘SEXPREC* readContinuousMzArray(const char*, double, int) [with CType = long int; RType = int; SEXP = SEXPREC*]’:
readImzML.cpp:27:2: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
readImzML.cpp: In function ‘SEXPREC* readProcessedIbdArray(const char*, double*, int*, int) [with CType = float; RType = double; SEXP = SEXPREC*]’:
readImzML.cpp:74:3: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
fread(tmp, sizeof(CType), length[j], pfile);
^
readImzML.cpp: In function ‘SEXPREC* readProcessedIbdArray(const char*, double*, int*, int) [with CType = double; RType = double; SEXP = SEXPREC*]’:
readImzML.cpp:74:3: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
readImzML.cpp: In function ‘SEXPREC* readProcessedIbdArray(const char*, double*, int*, int) [with CType = int; RType = int; SEXP = SEXPREC*]’:
readImzML.cpp:74:3: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
readImzML.cpp: In function ‘SEXPREC* readProcessedIbdArray(const char*, double*, int*, int) [with CType = long int; RType = int; SEXP = SEXPREC*]’:
readImzML.cpp:74:3: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
readImzML.cpp: In function ‘SEXPREC* readContinuousIntensityArray(const char*, double, int, int) [with CType = short int; RType = int; SEXP = SEXPREC*]’:
readImzML.cpp:49:3: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
fread(tmp, sizeof(CType), nrow, pfile);
^
readImzML.cpp: In function ‘SEXPREC* readContinuousIntensityArray(const char*, double, int, int) [with CType = float; RType = double; SEXP = SEXPREC*]’:
readImzML.cpp:49:3: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
readImzML.cpp: In function ‘SEXPREC* readContinuousIntensityArray(const char*, double, int, int) [with CType = double; RType = double; SEXP = SEXPREC*]’:
readImzML.cpp:49:3: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
readImzML.cpp: In function ‘SEXPREC* readContinuousIntensityArray(const char*, double, int, int) [with CType = int; RType = int; SEXP = SEXPREC*]’:
readImzML.cpp:49:3: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
readImzML.cpp: In function ‘SEXPREC* readContinuousIntensityArray(const char*, double, int, int) [with CType = long int; RType = int; SEXP = SEXPREC*]’:
readImzML.cpp:49:3: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
readImzML.cpp: In function ‘SEXPREC* readProcessedIbdArray(const char*, double*, int*, int) [with CType = short int; RType = int; SEXP = SEXPREC*]’:
readImzML.cpp:74:3: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
fread(tmp, sizeof(CType), length[j], pfile);
^
gcc -I/home/biocbuild/bbs-3.4-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c smooth.c -o smooth.o
gcc -I/home/biocbuild/bbs-3.4-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c spatial.c -o spatial.o
g++ -I/home/biocbuild/bbs-3.4-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c utils.cpp -o utils.o
g++ -shared -L/home/biocbuild/bbs-3.4-bioc/R/lib -L/usr/local/lib -o Cardinal.so dynamicAlign.o fastmap.o localMaxima.o pugixml.o readAnalyze.o readImzML.o smooth.o spatial.o utils.o -L/home/biocbuild/bbs-3.4-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.4-bioc/R/library/Cardinal/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (Cardinal)
