Job ID = 1293737 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-02T17:01:57 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 : 23,630,901 reads read : 23,630,901 reads written : 23,630,901 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: 00:08:14 23630901 reads; of these: 23630901 (100.00%) were unpaired; of these: 563262 (2.38%) aligned 0 times 18499671 (78.29%) aligned exactly 1 time 4567968 (19.33%) aligned >1 times 97.62% overall alignment rate Time searching: 00:08:14 Overall time: 00:08:14 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] 4555632 / 23067639 = 0.1975 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 02:19:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.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 02:19:17: #1 read tag files... INFO @ Mon, 03 Jun 2019 02:19:17: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 02:19:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.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 02:19:17: #1 read tag files... INFO @ Mon, 03 Jun 2019 02:19:17: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 02:19:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.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 02:19:17: #1 read tag files... INFO @ Mon, 03 Jun 2019 02:19:17: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 02:19:25: 1000000 INFO @ Mon, 03 Jun 2019 02:19:26: 1000000 INFO @ Mon, 03 Jun 2019 02:19:28: 1000000 INFO @ Mon, 03 Jun 2019 02:19:33: 2000000 INFO @ Mon, 03 Jun 2019 02:19:35: 2000000 INFO @ Mon, 03 Jun 2019 02:19:39: 2000000 INFO @ Mon, 03 Jun 2019 02:19:41: 3000000 INFO @ Mon, 03 Jun 2019 02:19:44: 3000000 INFO @ Mon, 03 Jun 2019 02:19:48: 4000000 INFO @ Mon, 03 Jun 2019 02:19:49: 3000000 INFO @ Mon, 03 Jun 2019 02:19:53: 4000000 INFO @ Mon, 03 Jun 2019 02:19:56: 5000000 INFO @ Mon, 03 Jun 2019 02:20:00: 4000000 INFO @ Mon, 03 Jun 2019 02:20:01: 5000000 INFO @ Mon, 03 Jun 2019 02:20:03: 6000000 INFO @ Mon, 03 Jun 2019 02:20:10: 6000000 INFO @ Mon, 03 Jun 2019 02:20:10: 5000000 INFO @ Mon, 03 Jun 2019 02:20:11: 7000000 INFO @ Mon, 03 Jun 2019 02:20:18: 7000000 INFO @ Mon, 03 Jun 2019 02:20:19: 8000000 INFO @ Mon, 03 Jun 2019 02:20:20: 6000000 INFO @ Mon, 03 Jun 2019 02:20:26: 9000000 INFO @ Mon, 03 Jun 2019 02:20:27: 8000000 INFO @ Mon, 03 Jun 2019 02:20:30: 7000000 INFO @ Mon, 03 Jun 2019 02:20:34: 10000000 INFO @ Mon, 03 Jun 2019 02:20:35: 9000000 INFO @ Mon, 03 Jun 2019 02:20:40: 8000000 INFO @ Mon, 03 Jun 2019 02:20:42: 11000000 INFO @ Mon, 03 Jun 2019 02:20:44: 10000000 INFO @ Mon, 03 Jun 2019 02:20:49: 12000000 INFO @ Mon, 03 Jun 2019 02:20:51: 9000000 INFO @ Mon, 03 Jun 2019 02:20:53: 11000000 INFO @ Mon, 03 Jun 2019 02:20:57: 13000000 INFO @ Mon, 03 Jun 2019 02:21:01: 10000000 INFO @ Mon, 03 Jun 2019 02:21:01: 12000000 INFO @ Mon, 03 Jun 2019 02:21:05: 14000000 INFO @ Mon, 03 Jun 2019 02:21:10: 13000000 INFO @ Mon, 03 Jun 2019 02:21:11: 11000000 INFO @ Mon, 03 Jun 2019 02:21:12: 15000000 INFO @ Mon, 03 Jun 2019 02:21:19: 14000000 INFO @ Mon, 03 Jun 2019 02:21:20: 16000000 INFO @ Mon, 03 Jun 2019 02:21:22: 12000000 INFO @ Mon, 03 Jun 2019 02:21:27: 15000000 INFO @ Mon, 03 Jun 2019 02:21:28: 17000000 INFO @ Mon, 03 Jun 2019 02:21:32: 13000000 INFO @ Mon, 03 Jun 2019 02:21:35: 18000000 INFO @ Mon, 03 Jun 2019 02:21:36: 16000000 INFO @ Mon, 03 Jun 2019 02:21:39: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 02:21:39: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 02:21:39: #1 total tags in treatment: 18512007 INFO @ Mon, 03 Jun 2019 02:21:39: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 02:21:39: #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 02:21:40: #1 tags after filtering in treatment: 18512007 INFO @ Mon, 03 Jun 2019 02:21:40: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 02:21:40: #1 finished! INFO @ Mon, 03 Jun 2019 02:21:40: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 02:21:40: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 02:21:41: #2 number of paired peaks: 1 WARNING @ Mon, 03 Jun 2019 02:21:41: Too few paired peaks (1) 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 02:21:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.20_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/SRX111818/SRX111818.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 02:21:42: 14000000 INFO @ Mon, 03 Jun 2019 02:21:45: 17000000 INFO @ Mon, 03 Jun 2019 02:21:52: 15000000 INFO @ Mon, 03 Jun 2019 02:21:53: 18000000 INFO @ Mon, 03 Jun 2019 02:21:58: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 02:21:58: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 02:21:58: #1 total tags in treatment: 18512007 INFO @ Mon, 03 Jun 2019 02:21:58: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 02:21:58: #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 02:21:58: #1 tags after filtering in treatment: 18512007 INFO @ Mon, 03 Jun 2019 02:21:58: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 02:21:58: #1 finished! INFO @ Mon, 03 Jun 2019 02:21:58: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 02:21:58: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 02:22:00: #2 number of paired peaks: 1 WARNING @ Mon, 03 Jun 2019 02:22:00: Too few paired peaks (1) 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 02:22:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.10_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/SRX111818/SRX111818.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 02:22:02: 16000000 INFO @ Mon, 03 Jun 2019 02:22:11: 17000000 INFO @ Mon, 03 Jun 2019 02:22:21: 18000000 INFO @ Mon, 03 Jun 2019 02:22:26: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 02:22:26: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 02:22:26: #1 total tags in treatment: 18512007 INFO @ Mon, 03 Jun 2019 02:22:26: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 02:22:26: #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 02:22:26: #1 tags after filtering in treatment: 18512007 INFO @ Mon, 03 Jun 2019 02:22:26: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 02:22:26: #1 finished! INFO @ Mon, 03 Jun 2019 02:22:26: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 02:22:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 02:22:28: #2 number of paired peaks: 1 WARNING @ Mon, 03 Jun 2019 02:22:28: Too few paired peaks (1) 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 02:22:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111818/SRX111818.05_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。