Job ID = 1308851 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T14:02:53 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 ) 2019-06-03T14:04:03 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 : 66,990,366 reads read : 133,980,732 reads written : 66,990,366 reads 0-length : 66,990,366 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: 00:32:29 66990366 reads; of these: 66990366 (100.00%) were unpaired; of these: 1979109 (2.95%) aligned 0 times 47028683 (70.20%) aligned exactly 1 time 17982574 (26.84%) aligned >1 times 97.05% overall alignment rate Time searching: 00:32:29 Overall time: 00:32:29 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 28 files... [bam_rmdupse_core] 14703795 / 65011257 = 0.2262 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 @ Tue, 04 Jun 2019 00:08:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.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 @ Tue, 04 Jun 2019 00:08:52: #1 read tag files... INFO @ Tue, 04 Jun 2019 00:08:52: #1 read treatment tags... INFO @ Tue, 04 Jun 2019 00:08:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.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 @ Tue, 04 Jun 2019 00:08:52: #1 read tag files... INFO @ Tue, 04 Jun 2019 00:08:52: #1 read treatment tags... INFO @ Tue, 04 Jun 2019 00:08:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.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 @ Tue, 04 Jun 2019 00:08:52: #1 read tag files... INFO @ Tue, 04 Jun 2019 00:08:52: #1 read treatment tags... INFO @ Tue, 04 Jun 2019 00:09:00: 1000000 INFO @ Tue, 04 Jun 2019 00:09:01: 1000000 INFO @ Tue, 04 Jun 2019 00:09:02: 1000000 INFO @ Tue, 04 Jun 2019 00:09:09: 2000000 INFO @ Tue, 04 Jun 2019 00:09:09: 2000000 INFO @ Tue, 04 Jun 2019 00:09:12: 2000000 INFO @ Tue, 04 Jun 2019 00:09:17: 3000000 INFO @ Tue, 04 Jun 2019 00:09:18: 3000000 INFO @ Tue, 04 Jun 2019 00:09:21: 3000000 INFO @ Tue, 04 Jun 2019 00:09:25: 4000000 INFO @ Tue, 04 Jun 2019 00:09:26: 4000000 INFO @ Tue, 04 Jun 2019 00:09:31: 4000000 INFO @ Tue, 04 Jun 2019 00:09:33: 5000000 INFO @ Tue, 04 Jun 2019 00:09:34: 5000000 INFO @ Tue, 04 Jun 2019 00:09:40: 5000000 INFO @ Tue, 04 Jun 2019 00:09:40: 6000000 INFO @ Tue, 04 Jun 2019 00:09:42: 6000000 INFO @ Tue, 04 Jun 2019 00:09:48: 7000000 INFO @ Tue, 04 Jun 2019 00:09:48: 6000000 INFO @ Tue, 04 Jun 2019 00:09:50: 7000000 INFO @ Tue, 04 Jun 2019 00:09:55: 8000000 INFO @ Tue, 04 Jun 2019 00:09:57: 7000000 INFO @ Tue, 04 Jun 2019 00:09:58: 8000000 INFO @ Tue, 04 Jun 2019 00:10:03: 9000000 INFO @ Tue, 04 Jun 2019 00:10:06: 9000000 INFO @ Tue, 04 Jun 2019 00:10:06: 8000000 INFO @ Tue, 04 Jun 2019 00:10:10: 10000000 INFO @ Tue, 04 Jun 2019 00:10:13: 10000000 INFO @ Tue, 04 Jun 2019 00:10:15: 9000000 INFO @ Tue, 04 Jun 2019 00:10:18: 11000000 INFO @ Tue, 04 Jun 2019 00:10:21: 11000000 INFO @ Tue, 04 Jun 2019 00:10:24: 10000000 INFO @ Tue, 04 Jun 2019 00:10:25: 12000000 INFO @ Tue, 04 Jun 2019 00:10:29: 12000000 INFO @ Tue, 04 Jun 2019 00:10:32: 13000000 INFO @ Tue, 04 Jun 2019 00:10:33: 11000000 INFO @ Tue, 04 Jun 2019 00:10:37: 13000000 INFO @ Tue, 04 Jun 2019 00:10:40: 14000000 INFO @ Tue, 04 Jun 2019 00:10:42: 12000000 INFO @ Tue, 04 Jun 2019 00:10:45: 14000000 INFO @ Tue, 04 Jun 2019 00:10:47: 15000000 INFO @ Tue, 04 Jun 2019 00:10:50: 13000000 INFO @ Tue, 04 Jun 2019 00:10:52: 15000000 INFO @ Tue, 04 Jun 2019 00:10:55: 16000000 INFO @ Tue, 04 Jun 2019 00:10:59: 14000000 INFO @ Tue, 04 Jun 2019 00:11:00: 16000000 INFO @ Tue, 04 Jun 2019 00:11:02: 17000000 INFO @ Tue, 04 Jun 2019 00:11:07: 15000000 INFO @ Tue, 04 Jun 2019 00:11:08: 17000000 INFO @ Tue, 04 Jun 2019 00:11:09: 18000000 INFO @ Tue, 04 Jun 2019 00:11:15: 16000000 INFO @ Tue, 04 Jun 2019 00:11:15: 18000000 INFO @ Tue, 04 Jun 2019 00:11:17: 19000000 INFO @ Tue, 04 Jun 2019 00:11:23: 19000000 INFO @ Tue, 04 Jun 2019 00:11:24: 17000000 INFO @ Tue, 04 Jun 2019 00:11:24: 20000000 INFO @ Tue, 04 Jun 2019 00:11:31: 20000000 INFO @ Tue, 04 Jun 2019 00:11:31: 21000000 INFO @ Tue, 04 Jun 2019 00:11:32: 18000000 INFO @ Tue, 04 Jun 2019 00:11:39: 21000000 INFO @ Tue, 04 Jun 2019 00:11:39: 22000000 INFO @ Tue, 04 Jun 2019 00:11:40: 19000000 INFO @ Tue, 04 Jun 2019 00:11:46: 23000000 INFO @ Tue, 04 Jun 2019 00:11:46: 22000000 INFO @ Tue, 04 Jun 2019 00:11:49: 20000000 INFO @ Tue, 04 Jun 2019 00:11:53: 24000000 INFO @ Tue, 04 Jun 2019 00:11:54: 23000000 INFO @ Tue, 04 Jun 2019 00:11:57: 21000000 INFO @ Tue, 04 Jun 2019 00:12:01: 25000000 INFO @ Tue, 04 Jun 2019 00:12:02: 24000000 INFO @ Tue, 04 Jun 2019 00:12:06: 22000000 INFO @ Tue, 04 Jun 2019 00:12:08: 26000000 INFO @ Tue, 04 Jun 2019 00:12:10: 25000000 INFO @ Tue, 04 Jun 2019 00:12:14: 23000000 INFO @ Tue, 04 Jun 2019 00:12:15: 27000000 INFO @ Tue, 04 Jun 2019 00:12:17: 26000000 INFO @ Tue, 04 Jun 2019 00:12:22: 24000000 INFO @ Tue, 04 Jun 2019 00:12:23: 28000000 INFO @ Tue, 04 Jun 2019 00:12:25: 27000000 INFO @ Tue, 04 Jun 2019 00:12:31: 25000000 INFO @ Tue, 04 Jun 2019 00:12:33: 29000000 INFO @ Tue, 04 Jun 2019 00:12:33: 28000000 INFO @ Tue, 04 Jun 2019 00:12:41: 26000000 INFO @ Tue, 04 Jun 2019 00:12:41: 29000000 INFO @ Tue, 04 Jun 2019 00:12:43: 30000000 INFO @ Tue, 04 Jun 2019 00:12:49: 30000000 INFO @ Tue, 04 Jun 2019 00:12:49: 27000000 INFO @ Tue, 04 Jun 2019 00:12:51: 31000000 INFO @ Tue, 04 Jun 2019 00:12:56: 31000000 INFO @ Tue, 04 Jun 2019 00:12:58: 28000000 INFO @ Tue, 04 Jun 2019 00:12:59: 32000000 INFO @ Tue, 04 Jun 2019 00:13:04: 32000000 INFO @ Tue, 04 Jun 2019 00:13:06: 29000000 INFO @ Tue, 04 Jun 2019 00:13:06: 33000000 INFO @ Tue, 04 Jun 2019 00:13:11: 33000000 INFO @ Tue, 04 Jun 2019 00:13:14: 34000000 INFO @ Tue, 04 Jun 2019 00:13:15: 30000000 INFO @ Tue, 04 Jun 2019 00:13:19: 34000000 INFO @ Tue, 04 Jun 2019 00:13:21: 35000000 INFO @ Tue, 04 Jun 2019 00:13:24: 31000000 INFO @ Tue, 04 Jun 2019 00:13:26: 35000000 INFO @ Tue, 04 Jun 2019 00:13:29: 36000000 INFO @ Tue, 04 Jun 2019 00:13:32: 32000000 INFO @ Tue, 04 Jun 2019 00:13:34: 36000000 INFO @ Tue, 04 Jun 2019 00:13:36: 37000000 INFO @ Tue, 04 Jun 2019 00:13:41: 33000000 INFO @ Tue, 04 Jun 2019 00:13:42: 37000000 INFO @ Tue, 04 Jun 2019 00:13:44: 38000000 INFO @ Tue, 04 Jun 2019 00:13:49: 38000000 INFO @ Tue, 04 Jun 2019 00:13:50: 34000000 INFO @ Tue, 04 Jun 2019 00:13:51: 39000000 INFO @ Tue, 04 Jun 2019 00:13:57: 39000000 INFO @ Tue, 04 Jun 2019 00:13:58: 35000000 INFO @ Tue, 04 Jun 2019 00:13:59: 40000000 INFO @ Tue, 04 Jun 2019 00:14:05: 40000000 INFO @ Tue, 04 Jun 2019 00:14:07: 41000000 INFO @ Tue, 04 Jun 2019 00:14:07: 36000000 INFO @ Tue, 04 Jun 2019 00:14:12: 41000000 INFO @ Tue, 04 Jun 2019 00:14:14: 42000000 INFO @ Tue, 04 Jun 2019 00:14:16: 37000000 INFO @ Tue, 04 Jun 2019 00:14:20: 42000000 INFO @ Tue, 04 Jun 2019 00:14:22: 43000000 INFO @ Tue, 04 Jun 2019 00:14:24: 38000000 INFO @ Tue, 04 Jun 2019 00:14:28: 43000000 INFO @ Tue, 04 Jun 2019 00:14:29: 44000000 INFO @ Tue, 04 Jun 2019 00:14:33: 39000000 INFO @ Tue, 04 Jun 2019 00:14:35: 44000000 INFO @ Tue, 04 Jun 2019 00:14:37: 45000000 INFO @ Tue, 04 Jun 2019 00:14:42: 40000000 INFO @ Tue, 04 Jun 2019 00:14:43: 45000000 INFO @ Tue, 04 Jun 2019 00:14:44: 46000000 INFO @ Tue, 04 Jun 2019 00:14:50: 41000000 INFO @ Tue, 04 Jun 2019 00:14:50: 46000000 INFO @ Tue, 04 Jun 2019 00:14:52: 47000000 INFO @ Tue, 04 Jun 2019 00:14:58: 47000000 INFO @ Tue, 04 Jun 2019 00:14:59: 42000000 INFO @ Tue, 04 Jun 2019 00:15:00: 48000000 INFO @ Tue, 04 Jun 2019 00:15:05: 48000000 INFO @ Tue, 04 Jun 2019 00:15:07: 49000000 INFO @ Tue, 04 Jun 2019 00:15:08: 43000000 INFO @ Tue, 04 Jun 2019 00:15:13: 49000000 INFO @ Tue, 04 Jun 2019 00:15:15: 50000000 INFO @ Tue, 04 Jun 2019 00:15:17: #1 tag size is determined as 62 bps INFO @ Tue, 04 Jun 2019 00:15:17: #1 tag size = 62 INFO @ Tue, 04 Jun 2019 00:15:17: #1 total tags in treatment: 50307462 INFO @ Tue, 04 Jun 2019 00:15:17: #1 user defined the maximum tags... INFO @ Tue, 04 Jun 2019 00:15:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 04 Jun 2019 00:15:18: 44000000 INFO @ Tue, 04 Jun 2019 00:15:18: #1 tags after filtering in treatment: 50307462 INFO @ Tue, 04 Jun 2019 00:15:18: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 04 Jun 2019 00:15:18: #1 finished! INFO @ Tue, 04 Jun 2019 00:15:18: #2 Build Peak Model... INFO @ Tue, 04 Jun 2019 00:15:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 04 Jun 2019 00:15:21: 50000000 INFO @ Tue, 04 Jun 2019 00:15:23: #2 number of paired peaks: 0 WARNING @ Tue, 04 Jun 2019 00:15:23: 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 @ Tue, 04 Jun 2019 00:15:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.10_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/SRX5661476/SRX5661476.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 04 Jun 2019 00:15:23: #1 tag size is determined as 62 bps INFO @ Tue, 04 Jun 2019 00:15:23: #1 tag size = 62 INFO @ Tue, 04 Jun 2019 00:15:23: #1 total tags in treatment: 50307462 INFO @ Tue, 04 Jun 2019 00:15:23: #1 user defined the maximum tags... INFO @ Tue, 04 Jun 2019 00:15:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 04 Jun 2019 00:15:24: #1 tags after filtering in treatment: 50307462 INFO @ Tue, 04 Jun 2019 00:15:24: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 04 Jun 2019 00:15:24: #1 finished! INFO @ Tue, 04 Jun 2019 00:15:24: #2 Build Peak Model... INFO @ Tue, 04 Jun 2019 00:15:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 04 Jun 2019 00:15:27: 45000000 INFO @ Tue, 04 Jun 2019 00:15:29: #2 number of paired peaks: 0 WARNING @ Tue, 04 Jun 2019 00:15:29: 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 @ Tue, 04 Jun 2019 00:15:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.05_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/SRX5661476/SRX5661476.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 04 Jun 2019 00:15:36: 46000000 INFO @ Tue, 04 Jun 2019 00:15:46: 47000000 INFO @ Tue, 04 Jun 2019 00:15:55: 48000000 INFO @ Tue, 04 Jun 2019 00:16:05: 49000000 INFO @ Tue, 04 Jun 2019 00:16:14: 50000000 INFO @ Tue, 04 Jun 2019 00:16:17: #1 tag size is determined as 62 bps INFO @ Tue, 04 Jun 2019 00:16:17: #1 tag size = 62 INFO @ Tue, 04 Jun 2019 00:16:17: #1 total tags in treatment: 50307462 INFO @ Tue, 04 Jun 2019 00:16:17: #1 user defined the maximum tags... INFO @ Tue, 04 Jun 2019 00:16:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 04 Jun 2019 00:16:18: #1 tags after filtering in treatment: 50307462 INFO @ Tue, 04 Jun 2019 00:16:18: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 04 Jun 2019 00:16:18: #1 finished! INFO @ Tue, 04 Jun 2019 00:16:18: #2 Build Peak Model... INFO @ Tue, 04 Jun 2019 00:16:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 04 Jun 2019 00:16:22: #2 number of paired peaks: 0 WARNING @ Tue, 04 Jun 2019 00:16:22: 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 @ Tue, 04 Jun 2019 00:16:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.20_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/SRX5661476/SRX5661476.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661476/SRX5661476.20_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。