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### Running command:
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###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL FLAMES
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* installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/library’
* installing *source* package ‘FLAMES’ ...
** using staged installation
** libs
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rhtslib/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/zlibbioc/include' -I/usr/local/include   -fpic  -g -O2  -c RcppExports.cpp -o RcppExports.o
gcc -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rhtslib/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/zlibbioc/include' -I/usr/local/include   -fpic  -g -O2  -Wall -c bam.c -o bam.o
bam.c: In function ‘bam_remove_B’:
bam.c:163:2: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  163 |  for (k = 0; k < b->core.n_cigar; ++k)
      |  ^~~
bam.c:165:3: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  165 |   if (k == b->core.n_cigar) return 0; // no 'B'
      |   ^~
bam.c:226:3: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  226 |   for (k = 1; k < l; ++k)
      |   ^~~
bam.c:230:4: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  230 |    for (k = i = 0; k < l; ++k)
      |    ^~~
bam.c:230:4: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
bam.c:233:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  233 |     l = i;
      |     ^
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rhtslib/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/zlibbioc/include' -I/usr/local/include   -fpic  -g -O2  -c edit_dist.cpp -o edit_dist.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rhtslib/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/zlibbioc/include' -I/usr/local/include   -fpic  -g -O2  -c fastq_utils.cpp -o fastq_utils.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rhtslib/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/zlibbioc/include' -I/usr/local/include   -fpic  -g -O2  -c match_cell_barcode.cpp -o match_cell_barcode.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rhtslib/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/zlibbioc/include' -I/usr/local/include   -fpic  -g -O2  -c merge_bulk.cpp -o merge_bulk.o
gcc -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rhtslib/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/zlibbioc/include' -I/usr/local/include   -fpic  -g -O2  -Wall -c ssw.c -o ssw.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rhtslib/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/zlibbioc/include' -I/usr/local/include   -fpic  -g -O2  -c ssw_cpp.cpp -o ssw_cpp.o
g++ -std=gnu++17 -shared -L/home/biocbuild/bbs-3.14-bioc/R/lib -L/usr/local/lib -o FLAMES.so RcppExports.o bam.o edit_dist.o fastq_utils.o match_cell_barcode.o merge_bulk.o ssw.o ssw_cpp.o /home/biocbuild/bbs-3.14-bioc/R/library/Rhtslib/usrlib/libhts.a -lcurl -L/home/biocbuild/bbs-3.14-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.14-bioc/R/library/00LOCK-FLAMES/00new/FLAMES/libs
** R
** 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 (FLAMES)