Job ID = 1294747 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T00:49:54 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) spots read : 18,092,877 reads read : 18,092,877 reads written : 18,092,877 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘fastqDump_tmp*’: 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 Multiseed full-index search: 00:05:02 18092877 reads; of these: 18092877 (100.00%) were unpaired; of these: 1266525 (7.00%) aligned 0 times 14769643 (81.63%) aligned exactly 1 time 2056709 (11.37%) aligned >1 times 93.00% overall alignment rate Time searching: 00:05:03 Overall time: 00:05:03 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 1542562 / 16826352 = 0.0917 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 @ Mon, 03 Jun 2019 10:09:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 03 Jun 2019 10:09:54: #1 read tag files... INFO @ Mon, 03 Jun 2019 10:09:54: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 10:09:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 03 Jun 2019 10:09:54: #1 read tag files... INFO @ Mon, 03 Jun 2019 10:09:54: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 10:09:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 03 Jun 2019 10:09:54: #1 read tag files... INFO @ Mon, 03 Jun 2019 10:09:54: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 10:10:02: 1000000 INFO @ Mon, 03 Jun 2019 10:10:02: 1000000 INFO @ Mon, 03 Jun 2019 10:10:04: 1000000 INFO @ Mon, 03 Jun 2019 10:10:09: 2000000 INFO @ Mon, 03 Jun 2019 10:10:10: 2000000 INFO @ Mon, 03 Jun 2019 10:10:13: 2000000 INFO @ Mon, 03 Jun 2019 10:10:16: 3000000 INFO @ Mon, 03 Jun 2019 10:10:17: 3000000 INFO @ Mon, 03 Jun 2019 10:10:22: 3000000 INFO @ Mon, 03 Jun 2019 10:10:24: 4000000 INFO @ Mon, 03 Jun 2019 10:10:25: 4000000 INFO @ Mon, 03 Jun 2019 10:10:31: 5000000 INFO @ Mon, 03 Jun 2019 10:10:31: 4000000 INFO @ Mon, 03 Jun 2019 10:10:32: 5000000 INFO @ Mon, 03 Jun 2019 10:10:38: 6000000 INFO @ Mon, 03 Jun 2019 10:10:40: 6000000 INFO @ Mon, 03 Jun 2019 10:10:40: 5000000 INFO @ Mon, 03 Jun 2019 10:10:45: 7000000 INFO @ Mon, 03 Jun 2019 10:10:47: 7000000 INFO @ Mon, 03 Jun 2019 10:10:49: 6000000 INFO @ Mon, 03 Jun 2019 10:10:53: 8000000 INFO @ Mon, 03 Jun 2019 10:10:54: 8000000 INFO @ Mon, 03 Jun 2019 10:10:58: 7000000 INFO @ Mon, 03 Jun 2019 10:11:00: 9000000 INFO @ Mon, 03 Jun 2019 10:11:02: 9000000 INFO @ Mon, 03 Jun 2019 10:11:07: 10000000 INFO @ Mon, 03 Jun 2019 10:11:07: 8000000 INFO @ Mon, 03 Jun 2019 10:11:09: 10000000 INFO @ Mon, 03 Jun 2019 10:11:14: 11000000 INFO @ Mon, 03 Jun 2019 10:11:16: 9000000 INFO @ Mon, 03 Jun 2019 10:11:17: 11000000 INFO @ Mon, 03 Jun 2019 10:11:22: 12000000 INFO @ Mon, 03 Jun 2019 10:11:24: 12000000 INFO @ Mon, 03 Jun 2019 10:11:25: 10000000 INFO @ Mon, 03 Jun 2019 10:11:29: 13000000 INFO @ Mon, 03 Jun 2019 10:11:32: 13000000 INFO @ Mon, 03 Jun 2019 10:11:34: 11000000 INFO @ Mon, 03 Jun 2019 10:11:36: 14000000 INFO @ Mon, 03 Jun 2019 10:11:39: 14000000 INFO @ Mon, 03 Jun 2019 10:11:43: 12000000 INFO @ Mon, 03 Jun 2019 10:11:43: 15000000 INFO @ Mon, 03 Jun 2019 10:11:45: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 10:11:45: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 10:11:45: #1 total tags in treatment: 15283790 INFO @ Mon, 03 Jun 2019 10:11:45: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 10:11:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 03 Jun 2019 10:11:46: #1 tags after filtering in treatment: 15283790 INFO @ Mon, 03 Jun 2019 10:11:46: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 10:11:46: #1 finished! INFO @ Mon, 03 Jun 2019 10:11:46: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 10:11:46: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 10:11:46: 15000000 INFO @ Mon, 03 Jun 2019 10:11:47: #2 number of paired peaks: 4 WARNING @ Mon, 03 Jun 2019 10:11:47: Too few paired peaks (4) 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 @ Mon, 03 Jun 2019 10:11:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.05_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/dm3/SRX287856/SRX287856.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 10:11:49: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 10:11:49: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 10:11:49: #1 total tags in treatment: 15283790 INFO @ Mon, 03 Jun 2019 10:11:49: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 10:11:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 03 Jun 2019 10:11:49: #1 tags after filtering in treatment: 15283790 INFO @ Mon, 03 Jun 2019 10:11:49: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 10:11:49: #1 finished! INFO @ Mon, 03 Jun 2019 10:11:49: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 10:11:49: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 10:11:50: #2 number of paired peaks: 4 WARNING @ Mon, 03 Jun 2019 10:11:50: Too few paired peaks (4) 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 @ Mon, 03 Jun 2019 10:11:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.20_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/dm3/SRX287856/SRX287856.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 10:11:51: 13000000 INFO @ Mon, 03 Jun 2019 10:12:00: 14000000 INFO @ Mon, 03 Jun 2019 10:12:09: 15000000 INFO @ Mon, 03 Jun 2019 10:12:11: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 10:12:11: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 10:12:11: #1 total tags in treatment: 15283790 INFO @ Mon, 03 Jun 2019 10:12:11: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 10:12:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 03 Jun 2019 10:12:12: #1 tags after filtering in treatment: 15283790 INFO @ Mon, 03 Jun 2019 10:12:12: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 10:12:12: #1 finished! INFO @ Mon, 03 Jun 2019 10:12:12: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 10:12:12: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 10:12:13: #2 number of paired peaks: 4 WARNING @ Mon, 03 Jun 2019 10:12:13: Too few paired peaks (4) 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 @ Mon, 03 Jun 2019 10:12:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.10_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/dm3/SRX287856/SRX287856.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287856/SRX287856.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。