Job ID = 1306067 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T12:32:01 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 : 24,032,472 reads read : 24,032,472 reads written : 24,032,472 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: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:11:16 24032472 reads; of these: 24032472 (100.00%) were unpaired; of these: 462315 (1.92%) aligned 0 times 15781560 (65.67%) aligned exactly 1 time 7788597 (32.41%) aligned >1 times 98.08% overall alignment rate Time searching: 00:11:16 Overall time: 00:11:16 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 12 files... [bam_rmdupse_core] 5360157 / 23570157 = 0.2274 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 21:57:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.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 21:57:15: #1 read tag files... INFO @ Mon, 03 Jun 2019 21:57:15: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 21:57:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.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 21:57:15: #1 read tag files... INFO @ Mon, 03 Jun 2019 21:57:15: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 21:57:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.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 21:57:15: #1 read tag files... INFO @ Mon, 03 Jun 2019 21:57:15: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 21:57:22: 1000000 INFO @ Mon, 03 Jun 2019 21:57:23: 1000000 INFO @ Mon, 03 Jun 2019 21:57:23: 1000000 INFO @ Mon, 03 Jun 2019 21:57:30: 2000000 INFO @ Mon, 03 Jun 2019 21:57:30: 2000000 INFO @ Mon, 03 Jun 2019 21:57:31: 2000000 INFO @ Mon, 03 Jun 2019 21:57:37: 3000000 INFO @ Mon, 03 Jun 2019 21:57:37: 3000000 INFO @ Mon, 03 Jun 2019 21:57:39: 3000000 INFO @ Mon, 03 Jun 2019 21:57:44: 4000000 INFO @ Mon, 03 Jun 2019 21:57:45: 4000000 INFO @ Mon, 03 Jun 2019 21:57:46: 4000000 INFO @ Mon, 03 Jun 2019 21:57:52: 5000000 INFO @ Mon, 03 Jun 2019 21:57:52: 5000000 INFO @ Mon, 03 Jun 2019 21:57:54: 5000000 INFO @ Mon, 03 Jun 2019 21:57:59: 6000000 INFO @ Mon, 03 Jun 2019 21:57:59: 6000000 INFO @ Mon, 03 Jun 2019 21:58:02: 6000000 INFO @ Mon, 03 Jun 2019 21:58:06: 7000000 INFO @ Mon, 03 Jun 2019 21:58:07: 7000000 INFO @ Mon, 03 Jun 2019 21:58:10: 7000000 INFO @ Mon, 03 Jun 2019 21:58:14: 8000000 INFO @ Mon, 03 Jun 2019 21:58:14: 8000000 INFO @ Mon, 03 Jun 2019 21:58:18: 8000000 INFO @ Mon, 03 Jun 2019 21:58:21: 9000000 INFO @ Mon, 03 Jun 2019 21:58:21: 9000000 INFO @ Mon, 03 Jun 2019 21:58:25: 9000000 INFO @ Mon, 03 Jun 2019 21:58:28: 10000000 INFO @ Mon, 03 Jun 2019 21:58:28: 10000000 INFO @ Mon, 03 Jun 2019 21:58:33: 10000000 INFO @ Mon, 03 Jun 2019 21:58:35: 11000000 INFO @ Mon, 03 Jun 2019 21:58:35: 11000000 INFO @ Mon, 03 Jun 2019 21:58:41: 11000000 INFO @ Mon, 03 Jun 2019 21:58:42: 12000000 INFO @ Mon, 03 Jun 2019 21:58:43: 12000000 INFO @ Mon, 03 Jun 2019 21:58:49: 12000000 INFO @ Mon, 03 Jun 2019 21:58:49: 13000000 INFO @ Mon, 03 Jun 2019 21:58:50: 13000000 INFO @ Mon, 03 Jun 2019 21:58:55: 14000000 INFO @ Mon, 03 Jun 2019 21:58:56: 14000000 INFO @ Mon, 03 Jun 2019 21:58:58: 13000000 INFO @ Mon, 03 Jun 2019 21:59:02: 15000000 INFO @ Mon, 03 Jun 2019 21:59:03: 15000000 INFO @ Mon, 03 Jun 2019 21:59:06: 14000000 INFO @ Mon, 03 Jun 2019 21:59:08: 16000000 INFO @ Mon, 03 Jun 2019 21:59:10: 16000000 INFO @ Mon, 03 Jun 2019 21:59:14: 15000000 INFO @ Mon, 03 Jun 2019 21:59:15: 17000000 INFO @ Mon, 03 Jun 2019 21:59:17: 17000000 INFO @ Mon, 03 Jun 2019 21:59:21: 18000000 INFO @ Mon, 03 Jun 2019 21:59:22: 16000000 INFO @ Mon, 03 Jun 2019 21:59:23: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 21:59:23: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 21:59:23: #1 total tags in treatment: 18210000 INFO @ Mon, 03 Jun 2019 21:59:23: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 21:59:23: #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 21:59:23: #1 tags after filtering in treatment: 18210000 INFO @ Mon, 03 Jun 2019 21:59:23: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 21:59:23: #1 finished! INFO @ Mon, 03 Jun 2019 21:59:23: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 21:59:23: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 21:59:24: 18000000 INFO @ Mon, 03 Jun 2019 21:59:25: #2 number of paired peaks: 46 WARNING @ Mon, 03 Jun 2019 21:59:25: Too few paired peaks (46) 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 21:59:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.20_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/SRX495318/SRX495318.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 21:59:26: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 21:59:26: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 21:59:26: #1 total tags in treatment: 18210000 INFO @ Mon, 03 Jun 2019 21:59:26: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 21:59:26: #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 21:59:26: #1 tags after filtering in treatment: 18210000 INFO @ Mon, 03 Jun 2019 21:59:26: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 21:59:26: #1 finished! INFO @ Mon, 03 Jun 2019 21:59:26: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 21:59:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 21:59:28: #2 number of paired peaks: 46 WARNING @ Mon, 03 Jun 2019 21:59:28: Too few paired peaks (46) 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 21:59:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.05_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/SRX495318/SRX495318.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 21:59:29: 17000000 INFO @ Mon, 03 Jun 2019 21:59:37: 18000000 INFO @ Mon, 03 Jun 2019 21:59:38: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 21:59:38: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 21:59:38: #1 total tags in treatment: 18210000 INFO @ Mon, 03 Jun 2019 21:59:38: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 21:59:38: #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 21:59:39: #1 tags after filtering in treatment: 18210000 INFO @ Mon, 03 Jun 2019 21:59:39: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 21:59:39: #1 finished! INFO @ Mon, 03 Jun 2019 21:59:39: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 21:59:39: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 21:59:40: #2 number of paired peaks: 46 WARNING @ Mon, 03 Jun 2019 21:59:40: Too few paired peaks (46) 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 21:59:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.10_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/SRX495318/SRX495318.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495318/SRX495318.10_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。