Job ID = 1308913 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T14:20:30 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 ) 2019-06-03T14:20:30 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 : 76,006,596 reads read : 152,013,192 reads written : 76,006,596 reads 0-length : 76,006,596 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: 00:39:30 76006596 reads; of these: 76006596 (100.00%) were unpaired; of these: 2149242 (2.83%) aligned 0 times 53196475 (69.99%) aligned exactly 1 time 20660879 (27.18%) aligned >1 times 97.17% overall alignment rate Time searching: 00:39:30 Overall time: 00:39:30 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 32 files... [bam_rmdupse_core] 14589507 / 73857354 = 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 @ Tue, 04 Jun 2019 00:23:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.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 00:23:03: #1 read tag files... INFO @ Tue, 04 Jun 2019 00:23:03: #1 read treatment tags... INFO @ Tue, 04 Jun 2019 00:23:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.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 00:23:03: #1 read tag files... INFO @ Tue, 04 Jun 2019 00:23:03: #1 read treatment tags... INFO @ Tue, 04 Jun 2019 00:23:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.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 00:23:03: #1 read tag files... INFO @ Tue, 04 Jun 2019 00:23:03: #1 read treatment tags... INFO @ Tue, 04 Jun 2019 00:23:13: 1000000 INFO @ Tue, 04 Jun 2019 00:23:13: 1000000 INFO @ Tue, 04 Jun 2019 00:23:13: 1000000 INFO @ Tue, 04 Jun 2019 00:23:22: 2000000 INFO @ Tue, 04 Jun 2019 00:23:23: 2000000 INFO @ Tue, 04 Jun 2019 00:23:23: 2000000 INFO @ Tue, 04 Jun 2019 00:23:31: 3000000 INFO @ Tue, 04 Jun 2019 00:23:33: 3000000 INFO @ Tue, 04 Jun 2019 00:23:33: 3000000 INFO @ Tue, 04 Jun 2019 00:23:40: 4000000 INFO @ Tue, 04 Jun 2019 00:23:42: 4000000 INFO @ Tue, 04 Jun 2019 00:23:42: 4000000 INFO @ Tue, 04 Jun 2019 00:23:49: 5000000 INFO @ Tue, 04 Jun 2019 00:23:52: 5000000 INFO @ Tue, 04 Jun 2019 00:23:52: 5000000 INFO @ Tue, 04 Jun 2019 00:24:00: 6000000 INFO @ Tue, 04 Jun 2019 00:24:02: 6000000 INFO @ Tue, 04 Jun 2019 00:24:02: 6000000 INFO @ Tue, 04 Jun 2019 00:24:09: 7000000 INFO @ Tue, 04 Jun 2019 00:24:12: 7000000 INFO @ Tue, 04 Jun 2019 00:24:12: 7000000 INFO @ Tue, 04 Jun 2019 00:24:18: 8000000 INFO @ Tue, 04 Jun 2019 00:24:21: 8000000 INFO @ Tue, 04 Jun 2019 00:24:21: 8000000 INFO @ Tue, 04 Jun 2019 00:24:28: 9000000 INFO @ Tue, 04 Jun 2019 00:24:31: 9000000 INFO @ Tue, 04 Jun 2019 00:24:31: 9000000 INFO @ Tue, 04 Jun 2019 00:24:37: 10000000 INFO @ Tue, 04 Jun 2019 00:24:41: 10000000 INFO @ Tue, 04 Jun 2019 00:24:41: 10000000 INFO @ Tue, 04 Jun 2019 00:24:46: 11000000 INFO @ Tue, 04 Jun 2019 00:24:51: 11000000 INFO @ Tue, 04 Jun 2019 00:24:51: 11000000 INFO @ Tue, 04 Jun 2019 00:24:55: 12000000 INFO @ Tue, 04 Jun 2019 00:25:01: 12000000 INFO @ Tue, 04 Jun 2019 00:25:01: 12000000 INFO @ Tue, 04 Jun 2019 00:25:04: 13000000 INFO @ Tue, 04 Jun 2019 00:25:11: 13000000 INFO @ Tue, 04 Jun 2019 00:25:11: 13000000 INFO @ Tue, 04 Jun 2019 00:25:15: 14000000 INFO @ Tue, 04 Jun 2019 00:25:22: 14000000 INFO @ Tue, 04 Jun 2019 00:25:22: 14000000 INFO @ Tue, 04 Jun 2019 00:25:24: 15000000 INFO @ Tue, 04 Jun 2019 00:25:33: 15000000 INFO @ Tue, 04 Jun 2019 00:25:33: 15000000 INFO @ Tue, 04 Jun 2019 00:25:34: 16000000 INFO @ Tue, 04 Jun 2019 00:25:43: 16000000 INFO @ Tue, 04 Jun 2019 00:25:43: 16000000 INFO @ Tue, 04 Jun 2019 00:25:43: 17000000 INFO @ Tue, 04 Jun 2019 00:25:53: 18000000 INFO @ Tue, 04 Jun 2019 00:25:54: 17000000 INFO @ Tue, 04 Jun 2019 00:25:54: 17000000 INFO @ Tue, 04 Jun 2019 00:26:03: 19000000 INFO @ Tue, 04 Jun 2019 00:26:04: 18000000 INFO @ Tue, 04 Jun 2019 00:26:04: 18000000 INFO @ Tue, 04 Jun 2019 00:26:12: 20000000 INFO @ Tue, 04 Jun 2019 00:26:14: 19000000 INFO @ Tue, 04 Jun 2019 00:26:14: 19000000 INFO @ Tue, 04 Jun 2019 00:26:21: 21000000 INFO @ Tue, 04 Jun 2019 00:26:24: 20000000 INFO @ Tue, 04 Jun 2019 00:26:24: 20000000 INFO @ Tue, 04 Jun 2019 00:26:31: 22000000 INFO @ Tue, 04 Jun 2019 00:26:33: 21000000 INFO @ Tue, 04 Jun 2019 00:26:33: 21000000 INFO @ Tue, 04 Jun 2019 00:26:40: 23000000 INFO @ Tue, 04 Jun 2019 00:26:43: 22000000 INFO @ Tue, 04 Jun 2019 00:26:43: 22000000 INFO @ Tue, 04 Jun 2019 00:26:50: 24000000 INFO @ Tue, 04 Jun 2019 00:26:53: 23000000 INFO @ Tue, 04 Jun 2019 00:26:53: 23000000 INFO @ Tue, 04 Jun 2019 00:26:59: 25000000 INFO @ Tue, 04 Jun 2019 00:27:03: 24000000 INFO @ Tue, 04 Jun 2019 00:27:03: 24000000 INFO @ Tue, 04 Jun 2019 00:27:08: 26000000 INFO @ Tue, 04 Jun 2019 00:27:13: 25000000 INFO @ Tue, 04 Jun 2019 00:27:13: 25000000 INFO @ Tue, 04 Jun 2019 00:27:17: 27000000 INFO @ Tue, 04 Jun 2019 00:27:22: 26000000 INFO @ Tue, 04 Jun 2019 00:27:23: 26000000 INFO @ Tue, 04 Jun 2019 00:27:26: 28000000 INFO @ Tue, 04 Jun 2019 00:27:31: 27000000 INFO @ Tue, 04 Jun 2019 00:27:32: 27000000 INFO @ Tue, 04 Jun 2019 00:27:36: 29000000 INFO @ Tue, 04 Jun 2019 00:27:42: 28000000 INFO @ Tue, 04 Jun 2019 00:27:42: 28000000 INFO @ Tue, 04 Jun 2019 00:27:46: 30000000 INFO @ Tue, 04 Jun 2019 00:27:52: 29000000 INFO @ Tue, 04 Jun 2019 00:27:53: 29000000 INFO @ Tue, 04 Jun 2019 00:27:57: 31000000 INFO @ Tue, 04 Jun 2019 00:28:01: 30000000 INFO @ Tue, 04 Jun 2019 00:28:04: 30000000 INFO @ Tue, 04 Jun 2019 00:28:08: 32000000 INFO @ Tue, 04 Jun 2019 00:28:10: 31000000 INFO @ Tue, 04 Jun 2019 00:28:15: 31000000 INFO @ Tue, 04 Jun 2019 00:28:18: 33000000 INFO @ Tue, 04 Jun 2019 00:28:19: 32000000 INFO @ Tue, 04 Jun 2019 00:28:24: 32000000 INFO @ Tue, 04 Jun 2019 00:28:27: 34000000 INFO @ Tue, 04 Jun 2019 00:28:29: 33000000 INFO @ Tue, 04 Jun 2019 00:28:34: 33000000 INFO @ Tue, 04 Jun 2019 00:28:36: 35000000 INFO @ Tue, 04 Jun 2019 00:28:40: 34000000 INFO @ Tue, 04 Jun 2019 00:28:45: 34000000 INFO @ Tue, 04 Jun 2019 00:28:46: 36000000 INFO @ Tue, 04 Jun 2019 00:28:51: 35000000 INFO @ Tue, 04 Jun 2019 00:28:55: 37000000 INFO @ Tue, 04 Jun 2019 00:28:57: 35000000 INFO @ Tue, 04 Jun 2019 00:29:02: 36000000 INFO @ Tue, 04 Jun 2019 00:29:05: 38000000 INFO @ Tue, 04 Jun 2019 00:29:08: 36000000 INFO @ Tue, 04 Jun 2019 00:29:13: 37000000 INFO @ Tue, 04 Jun 2019 00:29:15: 39000000 INFO @ Tue, 04 Jun 2019 00:29:19: 37000000 INFO @ Tue, 04 Jun 2019 00:29:24: 40000000 INFO @ Tue, 04 Jun 2019 00:29:24: 38000000 INFO @ Tue, 04 Jun 2019 00:29:28: 38000000 INFO @ Tue, 04 Jun 2019 00:29:34: 39000000 INFO @ Tue, 04 Jun 2019 00:29:34: 41000000 INFO @ Tue, 04 Jun 2019 00:29:39: 39000000 INFO @ Tue, 04 Jun 2019 00:29:43: 40000000 INFO @ Tue, 04 Jun 2019 00:29:45: 42000000 INFO @ Tue, 04 Jun 2019 00:29:50: 40000000 INFO @ Tue, 04 Jun 2019 00:29:52: 41000000 INFO @ Tue, 04 Jun 2019 00:29:56: 43000000 INFO @ Tue, 04 Jun 2019 00:30:02: 41000000 INFO @ Tue, 04 Jun 2019 00:30:02: 42000000 INFO @ Tue, 04 Jun 2019 00:30:08: 44000000 INFO @ Tue, 04 Jun 2019 00:30:11: 43000000 INFO @ Tue, 04 Jun 2019 00:30:13: 42000000 INFO @ Tue, 04 Jun 2019 00:30:19: 45000000 INFO @ Tue, 04 Jun 2019 00:30:21: 44000000 INFO @ Tue, 04 Jun 2019 00:30:24: 43000000 INFO @ Tue, 04 Jun 2019 00:30:30: 46000000 INFO @ Tue, 04 Jun 2019 00:30:30: 45000000 INFO @ Tue, 04 Jun 2019 00:30:35: 44000000 INFO @ Tue, 04 Jun 2019 00:30:39: 46000000 INFO @ Tue, 04 Jun 2019 00:30:41: 47000000 INFO @ Tue, 04 Jun 2019 00:30:46: 45000000 INFO @ Tue, 04 Jun 2019 00:30:49: 47000000 INFO @ Tue, 04 Jun 2019 00:30:52: 48000000 INFO @ Tue, 04 Jun 2019 00:30:57: 46000000 INFO @ Tue, 04 Jun 2019 00:30:58: 48000000 INFO @ Tue, 04 Jun 2019 00:31:04: 49000000 INFO @ Tue, 04 Jun 2019 00:31:07: 47000000 INFO @ Tue, 04 Jun 2019 00:31:08: 49000000 INFO @ Tue, 04 Jun 2019 00:31:15: 50000000 INFO @ Tue, 04 Jun 2019 00:31:18: 50000000 INFO @ Tue, 04 Jun 2019 00:31:19: 48000000 INFO @ Tue, 04 Jun 2019 00:31:25: 51000000 INFO @ Tue, 04 Jun 2019 00:31:27: 51000000 INFO @ Tue, 04 Jun 2019 00:31:30: 49000000 INFO @ Tue, 04 Jun 2019 00:31:36: 52000000 INFO @ Tue, 04 Jun 2019 00:31:37: 52000000 INFO @ Tue, 04 Jun 2019 00:31:41: 50000000 INFO @ Tue, 04 Jun 2019 00:31:47: 53000000 INFO @ Tue, 04 Jun 2019 00:31:47: 53000000 INFO @ Tue, 04 Jun 2019 00:31:52: 51000000 INFO @ Tue, 04 Jun 2019 00:31:57: 54000000 INFO @ Tue, 04 Jun 2019 00:31:58: 54000000 INFO @ Tue, 04 Jun 2019 00:32:03: 52000000 INFO @ Tue, 04 Jun 2019 00:32:06: 55000000 INFO @ Tue, 04 Jun 2019 00:32:08: 55000000 INFO @ Tue, 04 Jun 2019 00:32:13: 53000000 INFO @ Tue, 04 Jun 2019 00:32:16: 56000000 INFO @ Tue, 04 Jun 2019 00:32:19: 56000000 INFO @ Tue, 04 Jun 2019 00:32:23: 54000000 INFO @ Tue, 04 Jun 2019 00:32:26: 57000000 INFO @ Tue, 04 Jun 2019 00:32:29: 57000000 INFO @ Tue, 04 Jun 2019 00:32:32: 55000000 INFO @ Tue, 04 Jun 2019 00:32:35: 58000000 INFO @ Tue, 04 Jun 2019 00:32:39: 58000000 INFO @ Tue, 04 Jun 2019 00:32:42: 56000000 INFO @ Tue, 04 Jun 2019 00:32:44: 59000000 INFO @ Tue, 04 Jun 2019 00:32:48: #1 tag size is determined as 62 bps INFO @ Tue, 04 Jun 2019 00:32:48: #1 tag size = 62 INFO @ Tue, 04 Jun 2019 00:32:48: #1 total tags in treatment: 59267847 INFO @ Tue, 04 Jun 2019 00:32:48: #1 user defined the maximum tags... INFO @ Tue, 04 Jun 2019 00:32:48: #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 00:32:48: 59000000 INFO @ Tue, 04 Jun 2019 00:32:49: #1 tags after filtering in treatment: 59267847 INFO @ Tue, 04 Jun 2019 00:32:49: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 04 Jun 2019 00:32:49: #1 finished! INFO @ Tue, 04 Jun 2019 00:32:49: #2 Build Peak Model... INFO @ Tue, 04 Jun 2019 00:32:49: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 04 Jun 2019 00:32:51: #1 tag size is determined as 62 bps INFO @ Tue, 04 Jun 2019 00:32:51: #1 tag size = 62 INFO @ Tue, 04 Jun 2019 00:32:51: #1 total tags in treatment: 59267847 INFO @ Tue, 04 Jun 2019 00:32:51: #1 user defined the maximum tags... INFO @ Tue, 04 Jun 2019 00:32:51: #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 00:32:52: 57000000 INFO @ Tue, 04 Jun 2019 00:32:53: #1 tags after filtering in treatment: 59267847 INFO @ Tue, 04 Jun 2019 00:32:53: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 04 Jun 2019 00:32:53: #1 finished! INFO @ Tue, 04 Jun 2019 00:32:53: #2 Build Peak Model... INFO @ Tue, 04 Jun 2019 00:32:53: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 04 Jun 2019 00:32:54: #2 number of paired peaks: 0 WARNING @ Tue, 04 Jun 2019 00:32:54: 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 00:32:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.10_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/SRX5661482/SRX5661482.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 04 Jun 2019 00:32:57: #2 number of paired peaks: 0 WARNING @ Tue, 04 Jun 2019 00:32:57: 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 00:32:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.20_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/SRX5661482/SRX5661482.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 04 Jun 2019 00:33:00: 58000000 INFO @ Tue, 04 Jun 2019 00:33:08: 59000000 INFO @ Tue, 04 Jun 2019 00:33:11: #1 tag size is determined as 62 bps INFO @ Tue, 04 Jun 2019 00:33:11: #1 tag size = 62 INFO @ Tue, 04 Jun 2019 00:33:11: #1 total tags in treatment: 59267847 INFO @ Tue, 04 Jun 2019 00:33:11: #1 user defined the maximum tags... INFO @ Tue, 04 Jun 2019 00:33:11: #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 00:33:12: #1 tags after filtering in treatment: 59267847 INFO @ Tue, 04 Jun 2019 00:33:12: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 04 Jun 2019 00:33:12: #1 finished! INFO @ Tue, 04 Jun 2019 00:33:12: #2 Build Peak Model... INFO @ Tue, 04 Jun 2019 00:33:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 04 Jun 2019 00:33:17: #2 number of paired peaks: 0 WARNING @ Tue, 04 Jun 2019 00:33:17: 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 00:33:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.05_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/SRX5661482/SRX5661482.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5661482/SRX5661482.05_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。