singularity exec --bind /vol $PWD/heathsc-gemBS-master-latest.simg /usr/local/bin/gemBS --loglevel debug call > debug.out : : Command call started at 2019-03-19 12:28:39.336777 : : ----------- Methylation Calling -------- : Reference : /vol/data/reference/mm10/wgbs/mm10_no_alt_analysis_set_ENCODE.fasta.gz : Species : Mouse : Right Trim : 0 : Left Trim : 5 : Chromosomes : ['chr19', 'chr18'] : Threads : 8 : Sample: liver_late_1 Bam: /vol/data/test_WGBS/data//mapping/liver_late_1/liver_late_1.bam : Sample: liver_early_4 Bam: /vol/data/test_WGBS/data//mapping/liver_early_4/liver_early_4.bam : Sample: liver_early_2 Bam: /vol/data/test_WGBS/data//mapping/liver_early_2/liver_early_2.bam : Sample: liver_early_1 Bam: /vol/data/test_WGBS/data//mapping/liver_early_1/liver_early_1.bam : Sample: liver_early_3 Bam: /vol/data/test_WGBS/data//mapping/liver_early_3/liver_early_3.bam : Sample: liver_late_2 Bam: /vol/data/test_WGBS/data//mapping/liver_late_2/liver_late_2.bam : Sample: liver_late_3 Bam: /vol/data/test_WGBS/data//mapping/liver_late_3/liver_late_3.bam : Sample: liver_late_4 Bam: /vol/data/test_WGBS/data//mapping/liver_late_4/liver_late_4.bam : : Methylation Calling... 2019-03-19 12:28:39,423 DEBUG: Using bundled binary : /usr/local/lib/python3.5/dist-packages/gemBS/bin/samtools 2019-03-19 12:28:39,424 DEBUG: Using bundled binary : /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call 2019-03-19 12:28:39,424 DEBUG: Using bundled binary : /usr/local/lib/python3.5/dist-packages/gemBS/bin/bcftools 2019-03-19 12:28:39,425 INFO: Starting: /usr/local/lib/python3.5/dist-packages/gemBS/bin/samtools view -L /vol/data/test_WGBS/data//calls/liver_late_1/contigs_liver_late_1_chr19.bed -h /vol/data/test_WGBS/data//mapping/liver_late_1/liver_late_1.bam | /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call -r /vol/data/reference/mm10/wgbs/mm10_no_alt_analysis_set_ENCODE.fasta.gz -n liver_late_1 --contig-bed /vol/data/test_WGBS/data//calls/liver_late_1/contigs_liver_late_1_chr19.bed --report-file /vol/data/test_WGBS/data//calls/liver_late_1/liver_late_1_chr19.json --right-trim 0 --left-trim 5 --conversion 0.0100,0.0500 --reference-bias 2 --mapq-threshold 10 --bq-threshold 13 | /usr/local/lib/python3.5/dist-packages/gemBS/bin/bcftools convert -o /vol/data/test_WGBS/data//calls/liver_late_1/liver_late_1_chr19.bcf -O b --threads 8 2019-03-19 12:28:39,425 DEBUG: Setting process log file to /vol/data/test_WGBS/data//calls/liver_late_1/bs_call_liver_late_1_chr19.err 2019-03-19 12:28:39,427 DEBUG: Starting subprocess 2019-03-19 12:28:39,441 DEBUG: Setting process log file to /vol/data/test_WGBS/data//calls/liver_late_1/bs_call_liver_late_1_chr19.err 2019-03-19 12:28:39,443 DEBUG: Setting process input to parent output 2019-03-19 12:28:39,443 DEBUG: Starting subprocess 2019-03-19 12:28:39,448 DEBUG: Using bundled binary : /usr/local/lib/python3.5/dist-packages/gemBS/bin/samtools 2019-03-19 12:28:39,449 DEBUG: Using bundled binary : /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call 2019-03-19 12:28:39,450 DEBUG: Using bundled binary : /usr/local/lib/python3.5/dist-packages/gemBS/bin/bcftools 2019-03-19 12:28:39,450 INFO: Starting: /usr/local/lib/python3.5/dist-packages/gemBS/bin/samtools view -L /vol/data/test_WGBS/data//calls/liver_late_1/contigs_liver_late_1_chr18.bed -h /vol/data/test_WGBS/data//mapping/liver_late_1/liver_late_1.bam | /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call -r /vol/data/reference/mm10/wgbs/mm10_no_alt_analysis_set_ENCODE.fasta.gz -n liver_late_1 --contig-bed /vol/data/test_WGBS/data//calls/liver_late_1/contigs_liver_late_1_chr18.bed --report-file /vol/data/test_WGBS/data//calls/liver_late_1/liver_late_1_chr18.json --right-trim 0 --left-trim 5 --conversion 0.0100,0.0500 --reference-bias 2 --mapq-threshold 10 --bq-threshold 13 | /usr/local/lib/python3.5/dist-packages/gemBS/bin/bcftools convert -o /vol/data/test_WGBS/data//calls/liver_late_1/liver_late_1_chr18.bcf -O b --threads 8 2019-03-19 12:28:39,452 DEBUG: Setting process log file to /vol/data/test_WGBS/data//calls/liver_late_1/bs_call_liver_late_1_chr18.err 2019-03-19 12:28:39,453 DEBUG: Starting subprocess 2019-03-19 12:28:39,457 DEBUG: Setting process log file to /vol/data/test_WGBS/data//calls/liver_late_1/bs_call_liver_late_1_chr19.err 2019-03-19 12:28:39,458 DEBUG: Setting process log file to /vol/data/test_WGBS/data//calls/liver_late_1/bs_call_liver_late_1_chr18.err 2019-03-19 12:28:39,458 DEBUG: Setting process input to parent output 2019-03-19 12:28:39,459 DEBUG: Starting subprocess 2019-03-19 12:28:39,462 DEBUG: Setting process input to parent output 2019-03-19 12:28:39,463 DEBUG: Starting subprocess 2019-03-19 12:28:39,469 DEBUG: Setting process log file to /vol/data/test_WGBS/data//calls/liver_late_1/bs_call_liver_late_1_chr18.err 2019-03-19 12:28:39,470 DEBUG: Setting process input to parent output 2019-03-19 12:28:39,470 DEBUG: Starting subprocess 2019-03-19 12:28:39,474 DEBUG: Using bundled binary : /usr/local/lib/python3.5/dist-packages/gemBS/bin/samtools 2019-03-19 12:28:39,474 DEBUG: Using bundled binary : /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call 2019-03-19 12:28:39,475 DEBUG: Using bundled binary : /usr/local/lib/python3.5/dist-packages/gemBS/bin/bcftools 2019-03-19 12:28:39,475 INFO: Starting: /usr/local/lib/python3.5/dist-packages/gemBS/bin/samtools view -L /vol/data/test_WGBS/data//calls/liver_late_2/contigs_liver_late_2_chr19.bed -h /vol/data/test_WGBS/data//mapping/liver_late_2/liver_late_2.bam | /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call -r /vol/data/reference/mm10/wgbs/mm10_no_alt_analysis_set_ENCODE.fasta.gz -n liver_late_2 --contig-bed /vol/data/test_WGBS/data//calls/liver_late_2/contigs_liver_late_2_chr19.bed --report-file /vol/data/test_WGBS/data//calls/liver_late_2/liver_late_2_chr19.json --right-trim 0 --left-trim 5 --conversion 0.0100,0.0500 --reference-bias 2 --mapq-threshold 10 --bq-threshold 13 | /usr/local/lib/python3.5/dist-packages/gemBS/bin/bcftools convert -o /vol/data/test_WGBS/data//calls/liver_late_2/liver_late_2_chr19.bcf -O b --threads 8 2019-03-19 12:28:39,475 DEBUG: Setting process log file to /vol/data/test_WGBS/data//calls/liver_late_2/bs_call_liver_late_2_chr19.err 2019-03-19 12:28:39,477 DEBUG: Starting subprocess 2019-03-19 12:28:39,481 DEBUG: Setting process log file to /vol/data/test_WGBS/data//calls/liver_late_2/bs_call_liver_late_2_chr19.err 2019-03-19 12:28:39,483 DEBUG: Setting process input to parent output 2019-03-19 12:28:39,483 DEBUG: Starting subprocess 2019-03-19 12:28:39,487 DEBUG: Setting process log file to /vol/data/test_WGBS/data//calls/liver_late_2/bs_call_liver_late_2_chr19.err 2019-03-19 12:28:39,488 DEBUG: Setting process input to parent output 2019-03-19 12:28:39,489 DEBUG: Starting subprocess 2019-03-19 12:28:39,501 DEBUG: Using bundled binary : /usr/local/lib/python3.5/dist-packages/gemBS/bin/samtools 2019-03-19 12:28:39,501 DEBUG: Using bundled binary : /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call 2019-03-19 12:28:39,502 DEBUG: Using bundled binary : /usr/local/lib/python3.5/dist-packages/gemBS/bin/bcftools 2019-03-19 12:28:39,502 INFO: Starting: /usr/local/lib/python3.5/dist-packages/gemBS/bin/samtools view -L /vol/data/test_WGBS/data//calls/liver_late_2/contigs_liver_late_2_chr18.bed -h /vol/data/test_WGBS/data//mapping/liver_late_2/liver_late_2.bam | /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call -r /vol/data/reference/mm10/wgbs/mm10_no_alt_analysis_set_ENCODE.fasta.gz -n liver_late_2 --contig-bed /vol/data/test_WGBS/data//calls/liver_late_2/contigs_liver_late_2_chr18.bed --report-file /vol/data/test_WGBS/data//calls/liver_late_2/liver_late_2_chr18.json --right-trim 0 --left-trim 5 --conversion 0.0100,0.0500 --reference-bias 2 --mapq-threshold 10 --bq-threshold 13 | /usr/local/lib/python3.5/dist-packages/gemBS/bin/bcftools convert -o /vol/data/test_WGBS/data//calls/liver_late_2/liver_late_2_chr18.bcf -O b --threads 8 2019-03-19 12:28:39,502 DEBUG: Setting process log file to /vol/data/test_WGBS/data//calls/liver_late_2/bs_call_liver_late_2_chr18.err 2019-03-19 12:28:39,503 DEBUG: Starting subprocess 2019-03-19 12:28:39,508 DEBUG: Setting process log file to /vol/data/test_WGBS/data//calls/liver_late_2/bs_call_liver_late_2_chr18.err 2019-03-19 12:28:39,509 DEBUG: Setting process input to parent output 2019-03-19 12:28:39,509 DEBUG: Starting subprocess 2019-03-19 12:28:39,516 DEBUG: Setting process log file to /vol/data/test_WGBS/data//calls/liver_late_2/bs_call_liver_late_2_chr18.err 2019-03-19 12:28:39,518 DEBUG: Setting process input to parent output 2019-03-19 12:28:39,518 DEBUG: Starting subprocess *** Error in `/usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call': double free or corruption (!prev): 0x0000000000ccfc60 *** ======= Backtrace: ========= /lib/x86_64-linux-gnu/libc.so.6(+0x777e5)[0x7fb8174a67e5] /lib/x86_64-linux-gnu/libc.so.6(+0x8037a)[0x7fb8174af37a] /lib/x86_64-linux-gnu/libc.so.6(+0x83350)[0x7fb8174b2350] /lib/x86_64-linux-gnu/libc.so.6(realloc+0x179)[0x7fb8174b3839] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x439e59] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x4115c6] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x411d54] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x414048] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x402ad2] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7fb81744f830] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x404669] ======= Memory map: ======== 00400000-00473000 r-xp 00000000 07:00 9169 /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call 00673000-00674000 r--p 00073000 07:00 9169 /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call 00674000-00679000 rw-p 00074000 07:00 9169 /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call 00679000-0067a000 rw-p 00000000 00:00 0 007cf000-00f8a000 rw-p 00000000 00:00 0 [heap] 7fb80c000000-7fb80c021000 rw-p 00000000 00:00 0 7fb80c021000-7fb810000000 ---p 00000000 00:00 0 7fb813015000-7fb81302b000 r-xp 00000000 07:00 1475 /lib/x86_64-linux-gnu/libgcc_s.so.1 7fb81302b000-7fb81322a000 ---p 00016000 07:00 1475 /lib/x86_64-linux-gnu/libgcc_s.so.1 7fb81322a000-7fb81322b000 rw-p 00015000 07:00 1475 /lib/x86_64-linux-gnu/libgcc_s.so.1 7fb81322b000-7fb81722b000 rw-p 00000000 00:00 0 7fb81722b000-7fb81722e000 r-xp 00000000 07:00 1463 /lib/x86_64-linux-gnu/libdl-2.23.so 7fb81722e000-7fb81742d000 ---p 00003000 07:00 1463 /lib/x86_64-linux-gnu/libdl-2.23.so 7fb81742d000-7fb81742e000 r--p 00002000 07:00 1463 /lib/x86_64-linux-gnu/libdl-2.23.so 7fb81742e000-7fb81742f000 rw-p 00003000 07:00 1463 /lib/x86_64-linux-gnu/libdl-2.23.so 7fb81742f000-7fb8175ef000 r-xp 00000000 07:00 1449 /lib/x86_64-linux-gnu/libc-2.23.so 7fb8175ef000-7fb8177ef000 ---p 001c0000 07:00 1449 /lib/x86_64-linux-gnu/libc-2.23.so 7fb8177ef000-7fb8177f3000 r--p 001c0000 07:00 1449 /lib/x86_64-linux-gnu/libc-2.23.so 7fb8177f3000-7fb8177f5000 rw-p 001c4000 07:00 1449 /lib/x86_64-linux-gnu/libc-2.23.so 7fb8177f5000-7fb8177f9000 rw-p 00000000 00:00 0 7fb8177f9000-7fb81781a000 r-xp 00000000 07:00 7724 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 7fb81781a000-7fb817a19000 ---p 00021000 07:00 7724 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 7fb817a19000-7fb817a1a000 r--p 00020000 07:00 7724 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 7fb817a1a000-7fb817a1b000 rw-p 00021000 07:00 7724 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 7fb817a1b000-7fb817a2a000 r-xp 00000000 07:00 1448 /lib/x86_64-linux-gnu/libbz2.so.1.0.4 7fb817a2a000-7fb817c29000 ---p 0000f000 07:00 1448 /lib/x86_64-linux-gnu/libbz2.so.1.0.4 7fb817c29000-7fb817c2a000 r--p 0000e000 07:00 1448 /lib/x86_64-linux-gnu/libbz2.so.1.0.4 7fb817c2a000-7fb817c2b000 rw-p 0000f000 07:00 1448 /lib/x86_64-linux-gnu/libbz2.so.1.0.4 7fb817c2b000-7fb817c44000 r-xp 00000000 07:00 1564 /lib/x86_64-linux-gnu/libz.so.1.2.8 7fb817c44000-7fb817e43000 ---p 00019000 07:00 1564 /lib/x86_64-linux-gnu/libz.so.1.2.8 7fb817e43000-7fb817e44000 r--p 00018000 07:00 1564 /lib/x86_64-linux-gnu/libz.so.1.2.8 7fb817e44000-7fb817e45000 rw-p 00019000 07:00 1564 /lib/x86_64-linux-gnu/libz.so.1.2.8 7fb817e45000-7fb817e5d000 r-xp 00000000 07:00 1530 /lib/x86_64-linux-gnu/libpthread-2.23.so 7fb817e5d000-7fb81805c000 ---p 00018000 07:00 1530 /lib/x86_64-linux-gnu/libpthread-2.23.so 7fb81805c000-7fb81805d000 r--p 00017000 07:00 1530 /lib/x86_64-linux-gnu/libpthread-2.23.so 7fb81805d000-7fb81805e000 rw-p 00018000 07:00 1530 /lib/x86_64-linux-gnu/libpthread-2.23.so 7fb81805e000-7fb818062000 rw-p 00000000 00:00 0 7fb818062000-7fb81816a000 r-xp 00000000 07:00 1490 /lib/x86_64-linux-gnu/libm-2.23.so 7fb81816a000-7fb818369000 ---p 00108000 07:00 1490 /lib/x86_64-linux-gnu/libm-2.23.so 7fb818369000-7fb81836a000 r--p 00107000 07:00 1490 /lib/x86_64-linux-gnu/libm-2.23.so 7fb81836a000-7fb81836b000 rw-p 00108000 07:00 1490 /lib/x86_64-linux-gnu/libm-2.23.so 7fb81836b000-7fb8183a8000 r-xp 00000000 07:00 7732 /usr/lib/x86_64-linux-gnu/libgslcblas.so.0.0.0 7fb8183a8000-7fb8185a7000 ---p 0003d000 07:00 7732 /usr/lib/x86_64-linux-gnu/libgslcblas.so.0.0.0 7fb8185a7000-7fb8185a8000 r--p 0003c000 07:00 7732 /usr/lib/x86_64-linux-gnu/libgslcblas.so.0.0.0 7fb8185a8000-7fb8185a9000 rw-p 0003d000 07:00 7732 /usr/lib/x86_64-linux-gnu/libgslcblas.so.0.0.0 7fb8185a9000-7fb8187d7000 r-xp 00000000 07:00 7728 /usr/lib/x86_64-linux-gnu/libgsl.so.19.0.0 7fb8187d7000-7fb8189d6000 ---p 0022e000 07:00 7728 /usr/lib/x86_64-linux-gnu/libgsl.so.19.0.0 7fb8189d6000-7fb8189d9000 r--p 0022d000 07:00 7728 /usr/lib/x86_64-linux-gnu/libgsl.so.19.0.0 7fb8189d9000-7fb8189e7000 rw-p 00230000 07:00 7728 /usr/lib/x86_64-linux-gnu/libgsl.so.19.0.0 7fb8189e7000-7fb8189e8000 rw-p 00000000 00:00 0 7fb8189e8000-7fb818a0e000 r-xp 00000000 07:00 1425 /lib/x86_64-linux-gnu/ld-2.23.so 7fb818c01000-7fb818c08000 rw-p 00000000 00:00 0 7fb818c0c000-7fb818c0d000 rw-p 00000000 00:00 0 7fb818c0d000-7fb818c0e000 r--p 00025000 07:00 1425 /lib/x86_64-linux-gnu/ld-2.23.so 7fb818c0e000-7fb818c0f000 rw-p 00026000 07:00 1425 /lib/x86_64-linux-gnu/ld-2.23.so 7fb818c0f000-7fb818c10000 rw-p 00000000 00:00 0 7ffecfb97000-7ffecfbb8000 rw-p 00000000 00:00 0 [stack] 7ffecfbbc000-7ffecfbbf000 r--p 00000000 00:00 0 [vvar] 7ffecfbbf000-7ffecfbc1000 r-xp 00000000 00:00 0 [vdso] ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0 [vsyscall] *** Error in `/usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call': double free or corruption (!prev): 0x000000000187fc60 *** ======= Backtrace: ========= /lib/x86_64-linux-gnu/libc.so.6(+0x777e5)[0x7f5a61afe7e5] /lib/x86_64-linux-gnu/libc.so.6(+0x8037a)[0x7f5a61b0737a] /lib/x86_64-linux-gnu/libc.so.6(+0x83350)[0x7f5a61b0a350] /lib/x86_64-linux-gnu/libc.so.6(realloc+0x179)[0x7f5a61b0b839] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x439e59] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x4115c6] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x411d54] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x414048] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x402ad2] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7f5a61aa7830] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x404669] ======= Memory map: ======== 00400000-00473000 r-xp 00000000 07:00 9169 /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call 00673000-00674000 r--p 00073000 07:00 9169 /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call 00674000-00679000 rw-p 00074000 07:00 9169 /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call 00679000-0067a000 rw-p 00000000 00:00 0 0137f000-01b3a000 rw-p 00000000 00:00 0 [heap] 7f5a58000000-7f5a58021000 rw-p 00000000 00:00 0 7f5a58021000-7f5a5c000000 ---p 00000000 00:00 0 7f5a5d66d000-7f5a5d683000 r-xp 00000000 07:00 1475 /lib/x86_64-linux-gnu/libgcc_s.so.1 7f5a5d683000-7f5a5d882000 ---p 00016000 07:00 1475 /lib/x86_64-linux-gnu/libgcc_s.so.1 7f5a5d882000-7f5a5d883000 rw-p 00015000 07:00 1475 /lib/x86_64-linux-gnu/libgcc_s.so.1 7f5a5d883000-7f5a61883000 rw-p 00000000 00:00 0 7f5a61883000-7f5a61886000 r-xp 00000000 07:00 1463 /lib/x86_64-linux-gnu/libdl-2.23.so 7f5a61886000-7f5a61a85000 ---p 00003000 07:00 1463 /lib/x86_64-linux-gnu/libdl-2.23.so 7f5a61a85000-7f5a61a86000 r--p 00002000 07:00 1463 /lib/x86_64-linux-gnu/libdl-2.23.so 7f5a61a86000-7f5a61a87000 rw-p 00003000 07:00 1463 /lib/x86_64-linux-gnu/libdl-2.23.so 7f5a61a87000-7f5a61c47000 r-xp 00000000 07:00 1449 /lib/x86_64-linux-gnu/libc-2.23.so 7f5a61c47000-7f5a61e47000 ---p 001c0000 07:00 1449 /lib/x86_64-linux-gnu/libc-2.23.so 7f5a61e47000-7f5a61e4b000 r--p 001c0000 07:00 1449 /lib/x86_64-linux-gnu/libc-2.23.so 7f5a61e4b000-7f5a61e4d000 rw-p 001c4000 07:00 1449 /lib/x86_64-linux-gnu/libc-2.23.so 7f5a61e4d000-7f5a61e51000 rw-p 00000000 00:00 0 7f5a61e51000-7f5a61e72000 r-xp 00000000 07:00 7724 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 7f5a61e72000-7f5a62071000 ---p 00021000 07:00 7724 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 7f5a62071000-7f5a62072000 r--p 00020000 07:00 7724 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 7f5a62072000-7f5a62073000 rw-p 00021000 07:00 7724 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 7f5a62073000-7f5a62082000 r-xp 00000000 07:00 1448 /lib/x86_64-linux-gnu/libbz2.so.1.0.4 7f5a62082000-7f5a62281000 ---p 0000f000 07:00 1448 /lib/x86_64-linux-gnu/libbz2.so.1.0.4 7f5a62281000-7f5a62282000 r--p 0000e000 07:00 1448 /lib/x86_64-linux-gnu/libbz2.so.1.0.4 7f5a62282000-7f5a62283000 rw-p 0000f000 07:00 1448 /lib/x86_64-linux-gnu/libbz2.so.1.0.4 7f5a62283000-7f5a6229c000 r-xp 00000000 07:00 1564 /lib/x86_64-linux-gnu/libz.so.1.2.8 7f5a6229c000-7f5a6249b000 ---p 00019000 07:00 1564 /lib/x86_64-linux-gnu/libz.so.1.2.8 7f5a6249b000-7f5a6249c000 r--p 00018000 07:00 1564 /lib/x86_64-linux-gnu/libz.so.1.2.8 7f5a6249c000-7f5a6249d000 rw-p 00019000 07:00 1564 /lib/x86_64-linux-gnu/libz.so.1.2.8 7f5a6249d000-7f5a624b5000 r-xp 00000000 07:00 1530 /lib/x86_64-linux-gnu/libpthread-2.23.so 7f5a624b5000-7f5a626b4000 ---p 00018000 07:00 1530 /lib/x86_64-linux-gnu/libpthread-2.23.so 7f5a626b4000-7f5a626b5000 r--p 00017000 07:00 1530 /lib/x86_64-linux-gnu/libpthread-2.23.so 7f5a626b5000-7f5a626b6000 rw-p 00018000 07:00 1530 /lib/x86_64-linux-gnu/libpthread-2.23.so 7f5a626b6000-7f5a626ba000 rw-p 00000000 00:00 0 7f5a626ba000-7f5a627c2000 r-xp 00000000 07:00 1490 /lib/x86_64-linux-gnu/libm-2.23.so 7f5a627c2000-7f5a629c1000 ---p 00108000 07:00 1490 /lib/x86_64-linux-gnu/libm-2.23.so 7f5a629c1000-7f5a629c2000 r--p 00107000 07:00 1490 /lib/x86_64-linux-gnu/libm-2.23.so 7f5a629c2000-7f5a629c3000 rw-p 00108000 07:00 1490 /lib/x86_64-linux-gnu/libm-2.23.so 7f5a629c3000-7f5a62a00000 r-xp 00000000 07:00 7732 /usr/lib/x86_64-linux-gnu/libgslcblas.so.0.0.0 7f5a62a00000-7f5a62bff000 ---p 0003d000 07:00 7732 /usr/lib/x86_64-linux-gnu/libgslcblas.so.0.0.0 7f5a62bff000-7f5a62c00000 r--p 0003c000 07:00 7732 /usr/lib/x86_64-linux-gnu/libgslcblas.so.0.0.0 7f5a62c00000-7f5a62c01000 rw-p 0003d000 07:00 7732 /usr/lib/x86_64-linux-gnu/libgslcblas.so.0.0.0 7f5a62c01000-7f5a62e2f000 r-xp 00000000 07:00 7728 /usr/lib/x86_64-linux-gnu/libgsl.so.19.0.0 7f5a62e2f000-7f5a6302e000 ---p 0022e000 07:00 7728 /usr/lib/x86_64-linux-gnu/libgsl.so.19.0.0 7f5a6302e000-7f5a63031000 r--p 0022d000 07:00 7728 /usr/lib/x86_64-linux-gnu/libgsl.so.19.0.0 7f5a63031000-7f5a6303f000 rw-p 00230000 07:00 7728 /usr/lib/x86_64-linux-gnu/libgsl.so.19.0.0 7f5a6303f000-7f5a63040000 rw-p 00000000 00:00 0 7f5a63040000-7f5a63066000 r-xp 00000000 07:00 1425 /lib/x86_64-linux-gnu/ld-2.23.so 7f5a63259000-7f5a63260000 rw-p 00000000 00:00 0 7f5a63264000-7f5a63265000 rw-p 00000000 00:00 0 7f5a63265000-7f5a63266000 r--p 00025000 07:00 1425 /lib/x86_64-linux-gnu/ld-2.23.so 7f5a63266000-7f5a63267000 rw-p 00026000 07:00 1425 /lib/x86_64-linux-gnu/ld-2.23.so 7f5a63267000-7f5a63268000 rw-p 00000000 00:00 0 7ffdb2117000-7ffdb2138000 rw-p 00000000 00:00 0 [stack] 7ffdb217b000-7ffdb217e000 r--p 00000000 00:00 0 [vvar] 7ffdb217e000-7ffdb2180000 r-xp 00000000 00:00 0 [vdso] ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0 [vsyscall] *** Error in `/usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call': double free or corruption (!prev): 0x00000000023fdc60 *** ======= Backtrace: ========= /lib/x86_64-linux-gnu/libc.so.6(+0x777e5)[0x7fa0d5ce87e5] /lib/x86_64-linux-gnu/libc.so.6(+0x8037a)[0x7fa0d5cf137a] /lib/x86_64-linux-gnu/libc.so.6(+0x83350)[0x7fa0d5cf4350] /lib/x86_64-linux-gnu/libc.so.6(realloc+0x179)[0x7fa0d5cf5839] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x439e59] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x4115c6] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x411d54] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x414048] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x402ad2] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7fa0d5c91830] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x404669] ======= Memory map: ======== 00400000-00473000 r-xp 00000000 07:00 9169 /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call 00673000-00674000 r--p 00073000 07:00 9169 /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call 00674000-00679000 rw-p 00074000 07:00 9169 /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call 00679000-0067a000 rw-p 00000000 00:00 0 01efd000-026b8000 rw-p 00000000 00:00 0 [heap] 7fa0cc000000-7fa0cc021000 rw-p 00000000 00:00 0 7fa0cc021000-7fa0d0000000 ---p 00000000 00:00 0 7fa0d1857000-7fa0d186d000 r-xp 00000000 07:00 1475 /lib/x86_64-linux-gnu/libgcc_s.so.1 7fa0d186d000-7fa0d1a6c000 ---p 00016000 07:00 1475 /lib/x86_64-linux-gnu/libgcc_s.so.1 7fa0d1a6c000-7fa0d1a6d000 rw-p 00015000 07:00 1475 /lib/x86_64-linux-gnu/libgcc_s.so.1 7fa0d1a6d000-7fa0d5a6d000 rw-p 00000000 00:00 0 7fa0d5a6d000-7fa0d5a70000 r-xp 00000000 07:00 1463 /lib/x86_64-linux-gnu/libdl-2.23.so 7fa0d5a70000-7fa0d5c6f000 ---p 00003000 07:00 1463 /lib/x86_64-linux-gnu/libdl-2.23.so 7fa0d5c6f000-7fa0d5c70000 r--p 00002000 07:00 1463 /lib/x86_64-linux-gnu/libdl-2.23.so 7fa0d5c70000-7fa0d5c71000 rw-p 00003000 07:00 1463 /lib/x86_64-linux-gnu/libdl-2.23.so 7fa0d5c71000-7fa0d5e31000 r-xp 00000000 07:00 1449 /lib/x86_64-linux-gnu/libc-2.23.so 7fa0d5e31000-7fa0d6031000 ---p 001c0000 07:00 1449 /lib/x86_64-linux-gnu/libc-2.23.so 7fa0d6031000-7fa0d6035000 r--p 001c0000 07:00 1449 /lib/x86_64-linux-gnu/libc-2.23.so 7fa0d6035000-7fa0d6037000 rw-p 001c4000 07:00 1449 /lib/x86_64-linux-gnu/libc-2.23.so 7fa0d6037000-7fa0d603b000 rw-p 00000000 00:00 0 7fa0d603b000-7fa0d605c000 r-xp 00000000 07:00 7724 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 7fa0d605c000-7fa0d625b000 ---p 00021000 07:00 7724 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 7fa0d625b000-7fa0d625c000 r--p 00020000 07:00 7724 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 7fa0d625c000-7fa0d625d000 rw-p 00021000 07:00 7724 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 7fa0d625d000-7fa0d626c000 r-xp 00000000 07:00 1448 /lib/x86_64-linux-gnu/libbz2.so.1.0.4 7fa0d626c000-7fa0d646b000 ---p 0000f000 07:00 1448 /lib/x86_64-linux-gnu/libbz2.so.1.0.4 7fa0d646b000-7fa0d646c000 r--p 0000e000 07:00 1448 /lib/x86_64-linux-gnu/libbz2.so.1.0.4 7fa0d646c000-7fa0d646d000 rw-p 0000f000 07:00 1448 /lib/x86_64-linux-gnu/libbz2.so.1.0.4 7fa0d646d000-7fa0d6486000 r-xp 00000000 07:00 1564 /lib/x86_64-linux-gnu/libz.so.1.2.8 7fa0d6486000-7fa0d6685000 ---p 00019000 07:00 1564 /lib/x86_64-linux-gnu/libz.so.1.2.8 7fa0d6685000-7fa0d6686000 r--p 00018000 07:00 1564 /lib/x86_64-linux-gnu/libz.so.1.2.8 7fa0d6686000-7fa0d6687000 rw-p 00019000 07:00 1564 /lib/x86_64-linux-gnu/libz.so.1.2.8 7fa0d6687000-7fa0d669f000 r-xp 00000000 07:00 1530 /lib/x86_64-linux-gnu/libpthread-2.23.so 7fa0d669f000-7fa0d689e000 ---p 00018000 07:00 1530 /lib/x86_64-linux-gnu/libpthread-2.23.so 7fa0d689e000-7fa0d689f000 r--p 00017000 07:00 1530 /lib/x86_64-linux-gnu/libpthread-2.23.so 7fa0d689f000-7fa0d68a0000 rw-p 00018000 07:00 1530 /lib/x86_64-linux-gnu/libpthread-2.23.so 7fa0d68a0000-7fa0d68a4000 rw-p 00000000 00:00 0 7fa0d68a4000-7fa0d69ac000 r-xp 00000000 07:00 1490 /lib/x86_64-linux-gnu/libm-2.23.so 7fa0d69ac000-7fa0d6bab000 ---p 00108000 07:00 1490 /lib/x86_64-linux-gnu/libm-2.23.so 7fa0d6bab000-7fa0d6bac000 r--p 00107000 07:00 1490 /lib/x86_64-linux-gnu/libm-2.23.so 7fa0d6bac000-7fa0d6bad000 rw-p 00108000 07:00 1490 /lib/x86_64-linux-gnu/libm-2.23.so 7fa0d6bad000-7fa0d6bea000 r-xp 00000000 07:00 7732 /usr/lib/x86_64-linux-gnu/libgslcblas.so.0.0.0 7fa0d6bea000-7fa0d6de9000 ---p 0003d000 07:00 7732 /usr/lib/x86_64-linux-gnu/libgslcblas.so.0.0.0 7fa0d6de9000-7fa0d6dea000 r--p 0003c000 07:00 7732 /usr/lib/x86_64-linux-gnu/libgslcblas.so.0.0.0 7fa0d6dea000-7fa0d6deb000 rw-p 0003d000 07:00 7732 /usr/lib/x86_64-linux-gnu/libgslcblas.so.0.0.0 7fa0d6deb000-7fa0d7019000 r-xp 00000000 07:00 7728 /usr/lib/x86_64-linux-gnu/libgsl.so.19.0.0 7fa0d7019000-7fa0d7218000 ---p 0022e000 07:00 7728 /usr/lib/x86_64-linux-gnu/libgsl.so.19.0.0 7fa0d7218000-7fa0d721b000 r--p 0022d000 07:00 7728 /usr/lib/x86_64-linux-gnu/libgsl.so.19.0.0 7fa0d721b000-7fa0d7229000 rw-p 00230000 07:00 7728 /usr/lib/x86_64-linux-gnu/libgsl.so.19.0.0 7fa0d7229000-7fa0d722a000 rw-p 00000000 00:00 0 7fa0d722a000-7fa0d7250000 r-xp 00000000 07:00 1425 /lib/x86_64-linux-gnu/ld-2.23.so 7fa0d7443000-7fa0d744a000 rw-p 00000000 00:00 0 7fa0d744e000-7fa0d744f000 rw-p 00000000 00:00 0 7fa0d744f000-7fa0d7450000 r--p 00025000 07:00 1425 /lib/x86_64-linux-gnu/ld-2.23.so 7fa0d7450000-7fa0d7451000 rw-p 00026000 07:00 1425 /lib/x86_64-linux-gnu/ld-2.23.so 7fa0d7451000-7fa0d7452000 rw-p 00000000 00:00 0 7ffead865000-7ffead886000 rw-p 00000000 00:00 0 [stack] 7ffead9f0000-7ffead9f3000 r--p 00000000 00:00 0 [vvar] 7ffead9f3000-7ffead9f5000 r-xp 00000000 00:00 0 [vdso] ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0 [vsyscall] 2019-03-19 12:28:40,866 DEBUG: Process '/usr/local/lib/python3.5/dist-packages/gemBS/bin/bcftools' finished with 255 2019-03-19 12:28:40,867 ERROR: Process '/usr/local/lib/python3.5/dist-packages/gemBS/bin/bcftools' finished with 255 2019-03-19 12:28:40,868 ERROR: Failed to open -: unknown file type Exception in thread Thread-2: Traceback (most recent call last): File "/usr/lib/python3.5/threading.py", line 914, in _bootstrap_inner self.run() File "/usr/local/lib/python3.5/dist-packages/gemBS/__init__.py", line 1000, in run raise ValueError("Error while executing the bscall process.") ValueError: Error while executing the bscall process. *** Error in `/usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call': double free or corruption (!prev): 0x0000000000f63c60 *** ======= Backtrace: ========= /lib/x86_64-linux-gnu/libc.so.6(+0x777e5)[0x7fae27afc7e5] /lib/x86_64-linux-gnu/libc.so.6(+0x8037a)[0x7fae27b0537a] /lib/x86_64-linux-gnu/libc.so.6(+0x83350)[0x7fae27b08350] /lib/x86_64-linux-gnu/libc.so.6(realloc+0x179)[0x7fae27b09839] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x439e59] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x4115c6] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x411d54] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x414048] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x402ad2] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7fae27aa5830] /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call[0x404669] ======= Memory map: ======== 00400000-00473000 r-xp 00000000 07:00 9169 /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call 00673000-00674000 r--p 00073000 07:00 9169 /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call 00674000-00679000 rw-p 00074000 07:00 9169 /usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/bs_call 00679000-0067a000 rw-p 00000000 00:00 0 00a63000-0121e000 rw-p 00000000 00:00 0 [heap] 7fae1c000000-7fae1c021000 rw-p 00000000 00:00 0 7fae1c021000-7fae20000000 ---p 00000000 00:00 0 7fae2366b000-7fae23681000 r-xp 00000000 07:00 1475 /lib/x86_64-linux-gnu/libgcc_s.so.1 7fae23681000-7fae23880000 ---p 00016000 07:00 1475 /lib/x86_64-linux-gnu/libgcc_s.so.1 7fae23880000-7fae23881000 rw-p 00015000 07:00 1475 /lib/x86_64-linux-gnu/libgcc_s.so.1 7fae23881000-7fae27881000 rw-p 00000000 00:00 0 7fae27881000-7fae27884000 r-xp 00000000 07:00 1463 /lib/x86_64-linux-gnu/libdl-2.23.so 7fae27884000-7fae27a83000 ---p 00003000 07:00 1463 /lib/x86_64-linux-gnu/libdl-2.23.so 7fae27a83000-7fae27a84000 r--p 00002000 07:00 1463 /lib/x86_64-linux-gnu/libdl-2.23.so 7fae27a84000-7fae27a85000 rw-p 00003000 07:00 1463 /lib/x86_64-linux-gnu/libdl-2.23.so 7fae27a85000-7fae27c45000 r-xp 00000000 07:00 1449 /lib/x86_64-linux-gnu/libc-2.23.so 7fae27c45000-7fae27e45000 ---p 001c0000 07:00 1449 /lib/x86_64-linux-gnu/libc-2.23.so 7fae27e45000-7fae27e49000 r--p 001c0000 07:00 1449 /lib/x86_64-linux-gnu/libc-2.23.so 7fae27e49000-7fae27e4b000 rw-p 001c4000 07:00 1449 /lib/x86_64-linux-gnu/libc-2.23.so 7fae27e4b000-7fae27e4f000 rw-p 00000000 00:00 0 7fae27e4f000-7fae27e70000 r-xp 00000000 07:00 7724 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 7fae27e70000-7fae2806f000 ---p 00021000 07:00 7724 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 7fae2806f000-7fae28070000 r--p 00020000 07:00 7724 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 7fae28070000-7fae28071000 rw-p 00021000 07:00 7724 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0 7fae28071000-7fae28080000 r-xp 00000000 07:00 1448 /lib/x86_64-linux-gnu/libbz2.so.1.0.4 7fae28080000-7fae2827f000 ---p 0000f000 07:00 1448 /lib/x86_64-linux-gnu/libbz2.so.1.0.4 7fae2827f000-7fae28280000 r--p 0000e000 07:00 1448 /lib/x86_64-linux-gnu/libbz2.so.1.0.4 7fae28280000-7fae28281000 rw-p 0000f000 07:00 1448 /lib/x86_64-linux-gnu/libbz2.so.1.0.4 7fae28281000-7fae2829a000 r-xp 00000000 07:00 1564 /lib/x86_64-linux-gnu/libz.so.1.2.8 7fae2829a000-7fae28499000 ---p 00019000 07:00 1564 /lib/x86_64-linux-gnu/libz.so.1.2.8 7fae28499000-7fae2849a000 r--p 00018000 07:00 1564 /lib/x86_64-linux-gnu/libz.so.1.2.8 7fae2849a000-7fae2849b000 rw-p 00019000 07:00 1564 /lib/x86_64-linux-gnu/libz.so.1.2.8 7fae2849b000-7fae284b3000 r-xp 00000000 07:00 1530 /lib/x86_64-linux-gnu/libpthread-2.23.so 7fae284b3000-7fae286b2000 ---p 00018000 07:00 1530 /lib/x86_64-linux-gnu/libpthread-2.23.so 7fae286b2000-7fae286b3000 r--p 00017000 07:00 1530 /lib/x86_64-linux-gnu/libpthread-2.23.so 7fae286b3000-7fae286b4000 rw-p 00018000 07:00 1530 /lib/x86_64-linux-gnu/libpthread-2.23.so 7fae286b4000-7fae286b8000 rw-p 00000000 00:00 0 7fae286b8000-7fae287c0000 r-xp 00000000 07:00 1490 /lib/x86_64-linux-gnu/libm-2.23.so 7fae287c0000-7fae289bf000 ---p 00108000 07:00 1490 /lib/x86_64-linux-gnu/libm-2.23.so 7fae289bf000-7fae289c0000 r--p 00107000 07:00 1490 /lib/x86_64-linux-gnu/libm-2.23.so 7fae289c0000-7fae289c1000 rw-p 00108000 07:00 1490 /lib/x86_64-linux-gnu/libm-2.23.so 7fae289c1000-7fae289fe000 r-xp 00000000 07:00 7732 /usr/lib/x86_64-linux-gnu/libgslcblas.so.0.0.0 7fae289fe000-7fae28bfd000 ---p 0003d000 07:00 7732 /usr/lib/x86_64-linux-gnu/libgslcblas.so.0.0.0 7fae28bfd000-7fae28bfe000 r--p 0003c000 07:00 7732 /usr/lib/x86_64-linux-gnu/libgslcblas.so.0.0.0 7fae28bfe000-7fae28bff000 rw-p 0003d000 07:00 7732 /usr/lib/x86_64-linux-gnu/libgslcblas.so.0.0.0 7fae28bff000-7fae28e2d000 r-xp 00000000 07:00 7728 /usr/lib/x86_64-linux-gnu/libgsl.so.19.0.0 7fae28e2d000-7fae2902c000 ---p 0022e000 07:00 7728 /usr/lib/x86_64-linux-gnu/libgsl.so.19.0.0 7fae2902c000-7fae2902f000 r--p 0022d000 07:00 7728 /usr/lib/x86_64-linux-gnu/libgsl.so.19.0.0 7fae2902f000-7fae2903d000 rw-p 00230000 07:00 7728 /usr/lib/x86_64-linux-gnu/libgsl.so.19.0.0 7fae2903d000-7fae2903e000 rw-p 00000000 00:00 0 7fae2903e000-7fae29064000 r-xp 00000000 07:00 1425 /lib/x86_64-linux-gnu/ld-2.23.so 7fae29257000-7fae2925e000 rw-p 00000000 00:00 0 7fae29262000-7fae29263000 rw-p 00000000 00:00 0 7fae29263000-7fae29264000 r--p 00025000 07:00 1425 /lib/x86_64-linux-gnu/ld-2.23.so 7fae29264000-7fae29265000 rw-p 00026000 07:00 1425 /lib/x86_64-linux-gnu/ld-2.23.so 7fae29265000-7fae29266000 rw-p 00000000 00:00 0 7fffaa0ac000-7fffaa0cd000 rw-p 00000000 00:00 0 [stack] 7fffaa18d000-7fffaa190000 r--p 00000000 00:00 0 [vvar] 7fffaa190000-7fffaa192000 r-xp 00000000 00:00 0 [vdso] ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0 [vsyscall] 2019-03-19 12:28:40,950 DEBUG: Process '/usr/local/lib/python3.5/dist-packages/gemBS/bin/bcftools' finished with 255 2019-03-19 12:28:40,950 ERROR: Process '/usr/local/lib/python3.5/dist-packages/gemBS/bin/bcftools' finished with 255 2019-03-19 12:28:40,951 ERROR: Failed to open -: unknown file type Exception in thread Thread-3: Traceback (most recent call last): File "/usr/lib/python3.5/threading.py", line 914, in _bootstrap_inner self.run() File "/usr/local/lib/python3.5/dist-packages/gemBS/__init__.py", line 1000, in run raise ValueError("Error while executing the bscall process.") ValueError: Error while executing the bscall process. 2019-03-19 12:28:40,965 DEBUG: Process '/usr/local/lib/python3.5/dist-packages/gemBS/bin/bcftools' finished with 255 2019-03-19 12:28:40,966 ERROR: Process '/usr/local/lib/python3.5/dist-packages/gemBS/bin/bcftools' finished with 255 2019-03-19 12:28:40,967 ERROR: Failed to open -: unknown file type Exception in thread Thread-4: Traceback (most recent call last): File "/usr/lib/python3.5/threading.py", line 914, in _bootstrap_inner self.run() File "/usr/local/lib/python3.5/dist-packages/gemBS/__init__.py", line 1000, in run raise ValueError("Error while executing the bscall process.") ValueError: Error while executing the bscall process. 2019-03-19 12:28:41,065 DEBUG: Process '/usr/local/lib/python3.5/dist-packages/gemBS/bin/bcftools' finished with 255 2019-03-19 12:28:41,065 ERROR: Process '/usr/local/lib/python3.5/dist-packages/gemBS/bin/bcftools' finished with 255 2019-03-19 12:28:41,066 ERROR: Failed to open -: unknown file type Exception in thread Thread-1: Traceback (most recent call last): File "/usr/lib/python3.5/threading.py", line 914, in _bootstrap_inner self.run() File "/usr/local/lib/python3.5/dist-packages/gemBS/__init__.py", line 1000, in run raise ValueError("Error while executing the bscall process.") ValueError: Error while executing the bscall process. : Methylation call done, samples performed: liver_late_1 liver_early_4 liver_early_2 liver_early_1 liver_early_3 liver_late_2 liver_late_3 liver_late_4