Job ID = 2589929 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-08-12T09:52:04 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 ) 2019-08-12T09:52:08 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 ) 2019-08-12T09:52:23 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 : 51,067,685 reads read : 51,067,685 reads written : 51,067,685 rm: cannot remove ‘[DSE]RR*’: 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: 00:12:15 51067685 reads; of these: 51067685 (100.00%) were unpaired; of these: 4586382 (8.98%) aligned 0 times 37933995 (74.28%) aligned exactly 1 time 8547308 (16.74%) aligned >1 times 91.02% overall alignment rate Time searching: 00:12:15 Overall time: 00:12:15 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 20 files... [bam_rmdupse_core] 9745434 / 46481303 = 0.2097 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, 12 Aug 2019 19:39:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.bam'] # control file = None # effective genome size = 9.00e+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 @ Mon, 12 Aug 2019 19:39:11: #1 read tag files... INFO @ Mon, 12 Aug 2019 19:39:11: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 19:39:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.bam'] # control file = None # effective genome size = 9.00e+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 @ Mon, 12 Aug 2019 19:39:12: #1 read tag files... INFO @ Mon, 12 Aug 2019 19:39:12: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 19:39:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.bam'] # control file = None # effective genome size = 9.00e+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 @ Mon, 12 Aug 2019 19:39:13: #1 read tag files... INFO @ Mon, 12 Aug 2019 19:39:13: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 19:39:21: 1000000 INFO @ Mon, 12 Aug 2019 19:39:22: 1000000 INFO @ Mon, 12 Aug 2019 19:39:23: 1000000 INFO @ Mon, 12 Aug 2019 19:39:30: 2000000 INFO @ Mon, 12 Aug 2019 19:39:31: 2000000 INFO @ Mon, 12 Aug 2019 19:39:32: 2000000 INFO @ Mon, 12 Aug 2019 19:39:39: 3000000 INFO @ Mon, 12 Aug 2019 19:39:40: 3000000 INFO @ Mon, 12 Aug 2019 19:39:41: 3000000 INFO @ Mon, 12 Aug 2019 19:39:47: 4000000 INFO @ Mon, 12 Aug 2019 19:39:49: 4000000 INFO @ Mon, 12 Aug 2019 19:39:50: 4000000 INFO @ Mon, 12 Aug 2019 19:39:55: 5000000 INFO @ Mon, 12 Aug 2019 19:39:58: 5000000 INFO @ Mon, 12 Aug 2019 19:40:00: 5000000 INFO @ Mon, 12 Aug 2019 19:40:03: 6000000 INFO @ Mon, 12 Aug 2019 19:40:08: 6000000 INFO @ Mon, 12 Aug 2019 19:40:09: 6000000 INFO @ Mon, 12 Aug 2019 19:40:11: 7000000 INFO @ Mon, 12 Aug 2019 19:40:17: 7000000 INFO @ Mon, 12 Aug 2019 19:40:18: 7000000 INFO @ Mon, 12 Aug 2019 19:40:19: 8000000 INFO @ Mon, 12 Aug 2019 19:40:27: 8000000 INFO @ Mon, 12 Aug 2019 19:40:27: 9000000 INFO @ Mon, 12 Aug 2019 19:40:28: 8000000 INFO @ Mon, 12 Aug 2019 19:40:36: 10000000 INFO @ Mon, 12 Aug 2019 19:40:37: 9000000 INFO @ Mon, 12 Aug 2019 19:40:38: 9000000 INFO @ Mon, 12 Aug 2019 19:40:44: 11000000 INFO @ Mon, 12 Aug 2019 19:40:47: 10000000 INFO @ Mon, 12 Aug 2019 19:40:48: 10000000 INFO @ Mon, 12 Aug 2019 19:40:52: 12000000 INFO @ Mon, 12 Aug 2019 19:40:57: 11000000 INFO @ Mon, 12 Aug 2019 19:40:58: 11000000 INFO @ Mon, 12 Aug 2019 19:41:00: 13000000 INFO @ Mon, 12 Aug 2019 19:41:07: 12000000 INFO @ Mon, 12 Aug 2019 19:41:08: 14000000 INFO @ Mon, 12 Aug 2019 19:41:08: 12000000 INFO @ Mon, 12 Aug 2019 19:41:16: 15000000 INFO @ Mon, 12 Aug 2019 19:41:16: 13000000 INFO @ Mon, 12 Aug 2019 19:41:18: 13000000 INFO @ Mon, 12 Aug 2019 19:41:24: 16000000 INFO @ Mon, 12 Aug 2019 19:41:25: 14000000 INFO @ Mon, 12 Aug 2019 19:41:27: 14000000 INFO @ Mon, 12 Aug 2019 19:41:32: 17000000 INFO @ Mon, 12 Aug 2019 19:41:34: 15000000 INFO @ Mon, 12 Aug 2019 19:41:36: 15000000 INFO @ Mon, 12 Aug 2019 19:41:39: 18000000 INFO @ Mon, 12 Aug 2019 19:41:44: 16000000 INFO @ Mon, 12 Aug 2019 19:41:45: 16000000 INFO @ Mon, 12 Aug 2019 19:41:47: 19000000 INFO @ Mon, 12 Aug 2019 19:41:53: 17000000 INFO @ Mon, 12 Aug 2019 19:41:54: 17000000 INFO @ Mon, 12 Aug 2019 19:41:55: 20000000 INFO @ Mon, 12 Aug 2019 19:42:02: 18000000 INFO @ Mon, 12 Aug 2019 19:42:03: 21000000 INFO @ Mon, 12 Aug 2019 19:42:04: 18000000 INFO @ Mon, 12 Aug 2019 19:42:11: 22000000 INFO @ Mon, 12 Aug 2019 19:42:11: 19000000 INFO @ Mon, 12 Aug 2019 19:42:13: 19000000 INFO @ Mon, 12 Aug 2019 19:42:19: 23000000 INFO @ Mon, 12 Aug 2019 19:42:21: 20000000 INFO @ Mon, 12 Aug 2019 19:42:22: 20000000 INFO @ Mon, 12 Aug 2019 19:42:27: 24000000 INFO @ Mon, 12 Aug 2019 19:42:30: 21000000 INFO @ Mon, 12 Aug 2019 19:42:32: 21000000 INFO @ Mon, 12 Aug 2019 19:42:34: 25000000 INFO @ Mon, 12 Aug 2019 19:42:40: 22000000 INFO @ Mon, 12 Aug 2019 19:42:41: 22000000 INFO @ Mon, 12 Aug 2019 19:42:42: 26000000 INFO @ Mon, 12 Aug 2019 19:42:49: 23000000 INFO @ Mon, 12 Aug 2019 19:42:50: 27000000 INFO @ Mon, 12 Aug 2019 19:42:50: 23000000 INFO @ Mon, 12 Aug 2019 19:42:58: 28000000 INFO @ Mon, 12 Aug 2019 19:42:58: 24000000 INFO @ Mon, 12 Aug 2019 19:42:59: 24000000 INFO @ Mon, 12 Aug 2019 19:43:05: 29000000 INFO @ Mon, 12 Aug 2019 19:43:07: 25000000 INFO @ Mon, 12 Aug 2019 19:43:09: 25000000 INFO @ Mon, 12 Aug 2019 19:43:13: 30000000 INFO @ Mon, 12 Aug 2019 19:43:16: 26000000 INFO @ Mon, 12 Aug 2019 19:43:18: 26000000 INFO @ Mon, 12 Aug 2019 19:43:21: 31000000 INFO @ Mon, 12 Aug 2019 19:43:25: 27000000 INFO @ Mon, 12 Aug 2019 19:43:27: 27000000 INFO @ Mon, 12 Aug 2019 19:43:29: 32000000 INFO @ Mon, 12 Aug 2019 19:43:34: 28000000 INFO @ Mon, 12 Aug 2019 19:43:36: 28000000 INFO @ Mon, 12 Aug 2019 19:43:36: 33000000 INFO @ Mon, 12 Aug 2019 19:43:43: 29000000 INFO @ Mon, 12 Aug 2019 19:43:44: 34000000 INFO @ Mon, 12 Aug 2019 19:43:45: 29000000 INFO @ Mon, 12 Aug 2019 19:43:52: 35000000 INFO @ Mon, 12 Aug 2019 19:43:53: 30000000 INFO @ Mon, 12 Aug 2019 19:43:54: 30000000 INFO @ Mon, 12 Aug 2019 19:44:00: 36000000 INFO @ Mon, 12 Aug 2019 19:44:02: 31000000 INFO @ Mon, 12 Aug 2019 19:44:03: 31000000 INFO @ Mon, 12 Aug 2019 19:44:06: #1 tag size is determined as 50 bps INFO @ Mon, 12 Aug 2019 19:44:06: #1 tag size = 50 INFO @ Mon, 12 Aug 2019 19:44:06: #1 total tags in treatment: 36735869 INFO @ Mon, 12 Aug 2019 19:44:06: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 19:44:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 19:44:07: #1 tags after filtering in treatment: 36735869 INFO @ Mon, 12 Aug 2019 19:44:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 19:44:07: #1 finished! INFO @ Mon, 12 Aug 2019 19:44:07: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 19:44:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 19:44:10: #2 number of paired peaks: 0 WARNING @ Mon, 12 Aug 2019 19:44:10: 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 @ Mon, 12 Aug 2019 19:44:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.20_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/ce10/SRX331349/SRX331349.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 19:44:11: 32000000 INFO @ Mon, 12 Aug 2019 19:44:12: 32000000 INFO @ Mon, 12 Aug 2019 19:44:19: 33000000 INFO @ Mon, 12 Aug 2019 19:44:21: 33000000 INFO @ Mon, 12 Aug 2019 19:44:28: 34000000 INFO @ Mon, 12 Aug 2019 19:44:30: 34000000 INFO @ Mon, 12 Aug 2019 19:44:37: 35000000 INFO @ Mon, 12 Aug 2019 19:44:39: 35000000 INFO @ Mon, 12 Aug 2019 19:44:46: 36000000 INFO @ Mon, 12 Aug 2019 19:44:48: 36000000 INFO @ Mon, 12 Aug 2019 19:44:53: #1 tag size is determined as 50 bps INFO @ Mon, 12 Aug 2019 19:44:53: #1 tag size = 50 INFO @ Mon, 12 Aug 2019 19:44:53: #1 total tags in treatment: 36735869 INFO @ Mon, 12 Aug 2019 19:44:53: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 19:44:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 19:44:53: #1 tags after filtering in treatment: 36735869 INFO @ Mon, 12 Aug 2019 19:44:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 19:44:53: #1 finished! INFO @ Mon, 12 Aug 2019 19:44:54: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 19:44:54: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 19:44:55: #1 tag size is determined as 50 bps INFO @ Mon, 12 Aug 2019 19:44:55: #1 tag size = 50 INFO @ Mon, 12 Aug 2019 19:44:55: #1 total tags in treatment: 36735869 INFO @ Mon, 12 Aug 2019 19:44:55: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 19:44:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 19:44:55: #1 tags after filtering in treatment: 36735869 INFO @ Mon, 12 Aug 2019 19:44:55: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 19:44:55: #1 finished! INFO @ Mon, 12 Aug 2019 19:44:55: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 19:44:55: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 19:44:56: #2 number of paired peaks: 0 WARNING @ Mon, 12 Aug 2019 19:44:56: 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 @ Mon, 12 Aug 2019 19:44:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.05_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/ce10/SRX331349/SRX331349.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 19:44:58: #2 number of paired peaks: 0 WARNING @ Mon, 12 Aug 2019 19:44:58: 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 @ Mon, 12 Aug 2019 19:44:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.10_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/ce10/SRX331349/SRX331349.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX331349/SRX331349.10_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。