Job ID = 2010923 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 12,346,149 reads read : 24,692,298 reads written : 24,692,298 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1105637.sra.cache’: 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: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:17:07 12346149 reads; of these: 12346149 (100.00%) were paired; of these: 1437568 (11.64%) aligned concordantly 0 times 9163445 (74.22%) aligned concordantly exactly 1 time 1745136 (14.14%) aligned concordantly >1 times ---- 1437568 pairs aligned concordantly 0 times; of these: 168473 (11.72%) aligned discordantly 1 time ---- 1269095 pairs aligned 0 times concordantly or discordantly; of these: 2538190 mates make up the pairs; of these: 2132075 (84.00%) aligned 0 times 274175 (10.80%) aligned exactly 1 time 131940 (5.20%) aligned >1 times 91.37% overall alignment rate Time searching: 00:17:07 Overall time: 00:17:07 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 12 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] 1623108 / 11037869 = 0.1470 in library ' ' 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 01:48:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.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 01:48:05: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:48:05: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:48:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.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 01:48:06: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:48:06: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:48:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.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 01:48:07: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:48:07: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:48:14: 1000000 INFO @ Sat, 06 Jul 2019 01:48:18: 1000000 INFO @ Sat, 06 Jul 2019 01:48:18: 1000000 INFO @ Sat, 06 Jul 2019 01:48:23: 2000000 INFO @ Sat, 06 Jul 2019 01:48:27: 2000000 INFO @ Sat, 06 Jul 2019 01:48:29: 2000000 INFO @ Sat, 06 Jul 2019 01:48:32: 3000000 INFO @ Sat, 06 Jul 2019 01:48:37: 3000000 INFO @ Sat, 06 Jul 2019 01:48:41: 3000000 INFO @ Sat, 06 Jul 2019 01:48:41: 4000000 INFO @ Sat, 06 Jul 2019 01:48:47: 4000000 INFO @ Sat, 06 Jul 2019 01:48:51: 5000000 INFO @ Sat, 06 Jul 2019 01:48:52: 4000000 INFO @ Sat, 06 Jul 2019 01:48:57: 5000000 INFO @ Sat, 06 Jul 2019 01:49:00: 6000000 INFO @ Sat, 06 Jul 2019 01:49:04: 5000000 INFO @ Sat, 06 Jul 2019 01:49:07: 6000000 INFO @ Sat, 06 Jul 2019 01:49:09: 7000000 INFO @ Sat, 06 Jul 2019 01:49:15: 6000000 INFO @ Sat, 06 Jul 2019 01:49:17: 7000000 INFO @ Sat, 06 Jul 2019 01:49:18: 8000000 INFO @ Sat, 06 Jul 2019 01:49:26: 7000000 INFO @ Sat, 06 Jul 2019 01:49:27: 8000000 INFO @ Sat, 06 Jul 2019 01:49:28: 9000000 INFO @ Sat, 06 Jul 2019 01:49:37: 9000000 INFO @ Sat, 06 Jul 2019 01:49:37: 10000000 INFO @ Sat, 06 Jul 2019 01:49:37: 8000000 INFO @ Sat, 06 Jul 2019 01:49:46: 10000000 INFO @ Sat, 06 Jul 2019 01:49:47: 11000000 INFO @ Sat, 06 Jul 2019 01:49:49: 9000000 INFO @ Sat, 06 Jul 2019 01:49:56: 12000000 INFO @ Sat, 06 Jul 2019 01:49:56: 11000000 INFO @ Sat, 06 Jul 2019 01:50:00: 10000000 INFO @ Sat, 06 Jul 2019 01:50:05: 13000000 INFO @ Sat, 06 Jul 2019 01:50:07: 12000000 INFO @ Sat, 06 Jul 2019 01:50:11: 11000000 INFO @ Sat, 06 Jul 2019 01:50:15: 14000000 INFO @ Sat, 06 Jul 2019 01:50:17: 13000000 INFO @ Sat, 06 Jul 2019 01:50:22: 12000000 INFO @ Sat, 06 Jul 2019 01:50:24: 15000000 INFO @ Sat, 06 Jul 2019 01:50:26: 14000000 INFO @ Sat, 06 Jul 2019 01:50:33: 13000000 INFO @ Sat, 06 Jul 2019 01:50:33: 16000000 INFO @ Sat, 06 Jul 2019 01:50:36: 15000000 INFO @ Sat, 06 Jul 2019 01:50:43: 17000000 INFO @ Sat, 06 Jul 2019 01:50:44: 14000000 INFO @ Sat, 06 Jul 2019 01:50:46: 16000000 INFO @ Sat, 06 Jul 2019 01:50:52: 18000000 INFO @ Sat, 06 Jul 2019 01:50:55: 15000000 INFO @ Sat, 06 Jul 2019 01:50:56: 17000000 INFO @ Sat, 06 Jul 2019 01:51:01: 19000000 INFO @ Sat, 06 Jul 2019 01:51:05: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:51:05: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:51:05: #1 total tags in treatment: 9288579 INFO @ Sat, 06 Jul 2019 01:51:05: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:51:05: #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 01:51:05: #1 tags after filtering in treatment: 6722772 INFO @ Sat, 06 Jul 2019 01:51:05: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 06 Jul 2019 01:51:05: #1 finished! INFO @ Sat, 06 Jul 2019 01:51:05: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:51:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:51:05: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:51:05: 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 01:51:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.05_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/SRX424396/SRX424396.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:51:06: 18000000 INFO @ Sat, 06 Jul 2019 01:51:06: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 01:51:16: 19000000 INFO @ Sat, 06 Jul 2019 01:51:17: 17000000 INFO @ Sat, 06 Jul 2019 01:51:19: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:51:19: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:51:19: #1 total tags in treatment: 9288579 INFO @ Sat, 06 Jul 2019 01:51:19: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:51:19: #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 01:51:19: #1 tags after filtering in treatment: 6722772 INFO @ Sat, 06 Jul 2019 01:51:19: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 06 Jul 2019 01:51:19: #1 finished! INFO @ Sat, 06 Jul 2019 01:51:19: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:51:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:51:19: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:51:19: 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 01:51:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.20_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/SRX424396/SRX424396.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:51:28: 18000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 01:51:39: 19000000 INFO @ Sat, 06 Jul 2019 01:51:42: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:51:42: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:51:42: #1 total tags in treatment: 9288579 INFO @ Sat, 06 Jul 2019 01:51:42: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:51:42: #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 01:51:42: #1 tags after filtering in treatment: 6722772 INFO @ Sat, 06 Jul 2019 01:51:42: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 06 Jul 2019 01:51:42: #1 finished! INFO @ Sat, 06 Jul 2019 01:51:42: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:51:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:51:43: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:51:43: 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 01:51:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.10_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/SRX424396/SRX424396.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424396/SRX424396.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling