Job ID = 1298484 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T08:25:19 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 ) 2019-06-03T08:25:19 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 ) 2019-06-03T08:25:19 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 ) 2019-06-03T08:25:19 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 ) 2019-06-03T08:26:06 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 ) 2019-06-03T08:29:31 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 ) 2019-06-03T08:29:31 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 ) 2019-06-03T08:29:54 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 ) 2019-06-03T08:32:22 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 : 17,765,478 reads read : 17,765,478 reads written : 17,765,478 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: 00:05:11 17765478 reads; of these: 17765478 (100.00%) were unpaired; of these: 535917 (3.02%) aligned 0 times 14657711 (82.51%) aligned exactly 1 time 2571850 (14.48%) aligned >1 times 96.98% overall alignment rate Time searching: 00:05:11 Overall time: 00:05:11 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] 2659798 / 17229561 = 0.1544 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 17:44:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.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 17:44:31: #1 read tag files... INFO @ Mon, 03 Jun 2019 17:44:31: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 17:44:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.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 17:44:31: #1 read tag files... INFO @ Mon, 03 Jun 2019 17:44:31: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 17:44:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.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 17:44:31: #1 read tag files... INFO @ Mon, 03 Jun 2019 17:44:31: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 17:44:40: 1000000 INFO @ Mon, 03 Jun 2019 17:44:40: 1000000 INFO @ Mon, 03 Jun 2019 17:44:40: 1000000 INFO @ Mon, 03 Jun 2019 17:44:48: 2000000 INFO @ Mon, 03 Jun 2019 17:44:49: 2000000 INFO @ Mon, 03 Jun 2019 17:44:49: 2000000 INFO @ Mon, 03 Jun 2019 17:44:57: 3000000 INFO @ Mon, 03 Jun 2019 17:44:57: 3000000 INFO @ Mon, 03 Jun 2019 17:44:57: 3000000 INFO @ Mon, 03 Jun 2019 17:45:05: 4000000 INFO @ Mon, 03 Jun 2019 17:45:05: 4000000 INFO @ Mon, 03 Jun 2019 17:45:05: 4000000 INFO @ Mon, 03 Jun 2019 17:45:13: 5000000 INFO @ Mon, 03 Jun 2019 17:45:13: 5000000 INFO @ Mon, 03 Jun 2019 17:45:13: 5000000 INFO @ Mon, 03 Jun 2019 17:45:21: 6000000 INFO @ Mon, 03 Jun 2019 17:45:21: 6000000 INFO @ Mon, 03 Jun 2019 17:45:22: 6000000 INFO @ Mon, 03 Jun 2019 17:45:29: 7000000 INFO @ Mon, 03 Jun 2019 17:45:30: 7000000 INFO @ Mon, 03 Jun 2019 17:45:30: 7000000 INFO @ Mon, 03 Jun 2019 17:45:37: 8000000 INFO @ Mon, 03 Jun 2019 17:45:38: 8000000 INFO @ Mon, 03 Jun 2019 17:45:38: 8000000 INFO @ Mon, 03 Jun 2019 17:45:45: 9000000 INFO @ Mon, 03 Jun 2019 17:45:46: 9000000 INFO @ Mon, 03 Jun 2019 17:45:47: 9000000 INFO @ Mon, 03 Jun 2019 17:45:53: 10000000 INFO @ Mon, 03 Jun 2019 17:45:54: 10000000 INFO @ Mon, 03 Jun 2019 17:45:55: 10000000 INFO @ Mon, 03 Jun 2019 17:46:02: 11000000 INFO @ Mon, 03 Jun 2019 17:46:02: 11000000 INFO @ Mon, 03 Jun 2019 17:46:03: 11000000 INFO @ Mon, 03 Jun 2019 17:46:10: 12000000 INFO @ Mon, 03 Jun 2019 17:46:11: 12000000 INFO @ Mon, 03 Jun 2019 17:46:11: 12000000 INFO @ Mon, 03 Jun 2019 17:46:18: 13000000 INFO @ Mon, 03 Jun 2019 17:46:19: 13000000 INFO @ Mon, 03 Jun 2019 17:46:20: 13000000 INFO @ Mon, 03 Jun 2019 17:46:26: 14000000 INFO @ Mon, 03 Jun 2019 17:46:27: 14000000 INFO @ Mon, 03 Jun 2019 17:46:28: 14000000 INFO @ Mon, 03 Jun 2019 17:46:31: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 17:46:31: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 17:46:31: #1 total tags in treatment: 14569763 INFO @ Mon, 03 Jun 2019 17:46:31: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 17:46:31: #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 17:46:31: #1 tags after filtering in treatment: 14569763 INFO @ Mon, 03 Jun 2019 17:46:31: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 17:46:31: #1 finished! INFO @ Mon, 03 Jun 2019 17:46:31: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 17:46:31: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 17:46:32: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 17:46:32: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 17:46:32: #1 total tags in treatment: 14569763 INFO @ Mon, 03 Jun 2019 17:46:32: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 17:46:32: #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 17:46:32: #1 tags after filtering in treatment: 14569763 INFO @ Mon, 03 Jun 2019 17:46:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 17:46:32: #1 finished! INFO @ Mon, 03 Jun 2019 17:46:32: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 17:46:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 17:46:32: #2 number of paired peaks: 38 WARNING @ Mon, 03 Jun 2019 17:46:32: Too few paired peaks (38) 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 17:46:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.10_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/SRX467036/SRX467036.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 17:46:33: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 17:46:33: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 17:46:33: #1 total tags in treatment: 14569763 INFO @ Mon, 03 Jun 2019 17:46:33: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 17:46:33: #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 17:46:33: #1 tags after filtering in treatment: 14569763 INFO @ Mon, 03 Jun 2019 17:46:33: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 17:46:33: #1 finished! INFO @ Mon, 03 Jun 2019 17:46:33: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 17:46:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 17:46:33: #2 number of paired peaks: 38 WARNING @ Mon, 03 Jun 2019 17:46:33: Too few paired peaks (38) 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 17:46:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.20_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/SRX467036/SRX467036.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 17:46:34: #2 number of paired peaks: 38 WARNING @ Mon, 03 Jun 2019 17:46:34: Too few paired peaks (38) 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 17:46:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.05_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/SRX467036/SRX467036.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467036/SRX467036.05_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。