Job ID = 2011848 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 24,697,143 reads read : 49,394,286 reads written : 49,394,191 reads 0-length : 95 rm: cannot remove ‘[DSE]RR*’: No such file or directory fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Warning: skipping mate #1 of read 'SRR8313295.2068963 2068963 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313295.2068963 2068963 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313295.5127851 5127851 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313295.5127851 5127851 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313295.6375846 6375846 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313295.6375846 6375846 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313295.7796598 7796598 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313295.7796598 7796598 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313295.8129913 8129913 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313295.8129913 8129913 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313295.8388907 8388907 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313295.8388907 8388907 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313295.16229028 16229028 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313295.16229028 16229028 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313295.17214570 17214570 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313295.17214570 17214570 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313295.18245203 18245203 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313295.18245203 18245203 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313295.19015358 19015358 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313295.19015358 19015358 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313295.21984163 21984163 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313295.21984163 21984163 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313295.24445988 24445988 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313295.24445988 24445988 length=1' because it was < 2 characters long Error, fewer reads in file specified with -1 than in file specified with -2 terminate called after throwing an instance of 'int' (ERR): bowtie2-align died with signal 6 (ABRT) (core dumped) マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 20 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 12458507 / 23424696 = 0.5319 in library ' ' awk: cmd. line:1: (FILENAME=- FNR=1) fatal: division by zero attempted BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Sat, 06 Jul 2019 03:53:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 06 Jul 2019 03:53:02: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:53:02: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:53:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 06 Jul 2019 03:53:03: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:53:03: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:53:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 06 Jul 2019 03:53:04: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:53:04: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:53:09: 1000000 INFO @ Sat, 06 Jul 2019 03:53:11: 1000000 INFO @ Sat, 06 Jul 2019 03:53:11: 1000000 INFO @ Sat, 06 Jul 2019 03:53:16: 2000000 INFO @ Sat, 06 Jul 2019 03:53:17: 2000000 INFO @ Sat, 06 Jul 2019 03:53:20: 2000000 INFO @ Sat, 06 Jul 2019 03:53:23: 3000000 INFO @ Sat, 06 Jul 2019 03:53:24: 3000000 INFO @ Sat, 06 Jul 2019 03:53:29: 3000000 INFO @ Sat, 06 Jul 2019 03:53:31: 4000000 INFO @ Sat, 06 Jul 2019 03:53:31: 4000000 INFO @ Sat, 06 Jul 2019 03:53:37: 5000000 INFO @ Sat, 06 Jul 2019 03:53:38: 5000000 INFO @ Sat, 06 Jul 2019 03:53:39: 4000000 INFO @ Sat, 06 Jul 2019 03:53:43: 6000000 INFO @ Sat, 06 Jul 2019 03:53:45: 6000000 INFO @ Sat, 06 Jul 2019 03:53:47: 5000000 INFO @ Sat, 06 Jul 2019 03:53:50: 7000000 INFO @ Sat, 06 Jul 2019 03:53:52: 7000000 INFO @ Sat, 06 Jul 2019 03:53:56: 6000000 INFO @ Sat, 06 Jul 2019 03:53:56: 8000000 INFO @ Sat, 06 Jul 2019 03:53:59: 8000000 INFO @ Sat, 06 Jul 2019 03:54:02: 9000000 INFO @ Sat, 06 Jul 2019 03:54:04: 7000000 INFO @ Sat, 06 Jul 2019 03:54:06: 9000000 INFO @ Sat, 06 Jul 2019 03:54:08: 10000000 INFO @ Sat, 06 Jul 2019 03:54:12: 8000000 INFO @ Sat, 06 Jul 2019 03:54:12: 10000000 INFO @ Sat, 06 Jul 2019 03:54:14: 11000000 INFO @ Sat, 06 Jul 2019 03:54:19: 11000000 INFO @ Sat, 06 Jul 2019 03:54:20: 9000000 INFO @ Sat, 06 Jul 2019 03:54:20: 12000000 INFO @ Sat, 06 Jul 2019 03:54:26: 12000000 INFO @ Sat, 06 Jul 2019 03:54:26: 13000000 INFO @ Sat, 06 Jul 2019 03:54:28: 10000000 INFO @ Sat, 06 Jul 2019 03:54:32: 13000000 INFO @ Sat, 06 Jul 2019 03:54:32: 14000000 INFO @ Sat, 06 Jul 2019 03:54:36: 11000000 INFO @ Sat, 06 Jul 2019 03:54:38: 15000000 INFO @ Sat, 06 Jul 2019 03:54:39: 14000000 INFO @ Sat, 06 Jul 2019 03:54:44: 12000000 INFO @ Sat, 06 Jul 2019 03:54:45: 16000000 INFO @ Sat, 06 Jul 2019 03:54:46: 15000000 INFO @ Sat, 06 Jul 2019 03:54:51: 17000000 INFO @ Sat, 06 Jul 2019 03:54:52: 13000000 INFO @ Sat, 06 Jul 2019 03:54:52: 16000000 INFO @ Sat, 06 Jul 2019 03:54:57: 18000000 INFO @ Sat, 06 Jul 2019 03:54:59: 17000000 INFO @ Sat, 06 Jul 2019 03:54:59: 14000000 INFO @ Sat, 06 Jul 2019 03:55:03: 19000000 INFO @ Sat, 06 Jul 2019 03:55:06: 18000000 INFO @ Sat, 06 Jul 2019 03:55:07: 15000000 INFO @ Sat, 06 Jul 2019 03:55:09: 20000000 INFO @ Sat, 06 Jul 2019 03:55:12: 19000000 INFO @ Sat, 06 Jul 2019 03:55:15: 16000000 INFO @ Sat, 06 Jul 2019 03:55:15: 21000000 INFO @ Sat, 06 Jul 2019 03:55:19: 20000000 INFO @ Sat, 06 Jul 2019 03:55:21: 22000000 INFO @ Sat, 06 Jul 2019 03:55:23: 17000000 INFO @ Sat, 06 Jul 2019 03:55:24: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 03:55:24: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 03:55:24: #1 total tags in treatment: 10950784 INFO @ Sat, 06 Jul 2019 03:55:24: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:55:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 03:55:25: #1 tags after filtering in treatment: 7036005 INFO @ Sat, 06 Jul 2019 03:55:25: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 06 Jul 2019 03:55:25: #1 finished! INFO @ Sat, 06 Jul 2019 03:55:25: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:55:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:55:25: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 03:55:25: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 06 Jul 2019 03:55:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 03:55:26: 21000000 INFO @ Sat, 06 Jul 2019 03:55:31: 18000000 INFO @ Sat, 06 Jul 2019 03:55:32: 22000000 INFO @ Sat, 06 Jul 2019 03:55:36: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 03:55:36: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 03:55:36: #1 total tags in treatment: 10950784 INFO @ Sat, 06 Jul 2019 03:55:36: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:55:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 03:55:36: #1 tags after filtering in treatment: 7036005 INFO @ Sat, 06 Jul 2019 03:55:36: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 06 Jul 2019 03:55:36: #1 finished! INFO @ Sat, 06 Jul 2019 03:55:36: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:55:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:55:37: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 03:55:37: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 06 Jul 2019 03:55:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 03:55:38: 19000000 INFO @ Sat, 06 Jul 2019 03:55:46: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 03:55:54: 21000000 INFO @ Sat, 06 Jul 2019 03:56:02: 22000000 INFO @ Sat, 06 Jul 2019 03:56:06: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 03:56:06: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 03:56:06: #1 total tags in treatment: 10950784 INFO @ Sat, 06 Jul 2019 03:56:06: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:56:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 03:56:06: #1 tags after filtering in treatment: 7036005 INFO @ Sat, 06 Jul 2019 03:56:06: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 06 Jul 2019 03:56:06: #1 finished! INFO @ Sat, 06 Jul 2019 03:56:06: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:56:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:56:07: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 03:56:07: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 06 Jul 2019 03:56:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.10_peaks.narrowPeak: No such file or directory BigWig に変換しました。 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126603/SRX5126603.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling