Job ID = 4178647 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-12-05T04:49:17 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 : 74,708,824 reads read : 149,417,648 reads written : 74,708,824 reads 0-length : 74,708,824 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: 00:38:38 74708824 reads; of these: 74708824 (100.00%) were unpaired; of these: 2890734 (3.87%) aligned 0 times 61973998 (82.95%) aligned exactly 1 time 9844092 (13.18%) aligned >1 times 96.13% overall alignment rate Time searching: 00:38:38 Overall time: 00:38:38 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] 18070779 / 71818090 = 0.2516 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Thu, 05 Dec 2019 15:10:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.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 @ Thu, 05 Dec 2019 15:10:34: #1 read tag files... INFO @ Thu, 05 Dec 2019 15:10:34: #1 read treatment tags... INFO @ Thu, 05 Dec 2019 15:10:43: 1000000 INFO @ Thu, 05 Dec 2019 15:10:51: 2000000 INFO @ Thu, 05 Dec 2019 15:10:58: 3000000 INFO @ Thu, 05 Dec 2019 15:11:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.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 @ Thu, 05 Dec 2019 15:11:02: #1 read tag files... INFO @ Thu, 05 Dec 2019 15:11:02: #1 read treatment tags... INFO @ Thu, 05 Dec 2019 15:11:07: 4000000 INFO @ Thu, 05 Dec 2019 15:11:13: 1000000 INFO @ Thu, 05 Dec 2019 15:11:17: 5000000 INFO @ Thu, 05 Dec 2019 15:11:22: 2000000 INFO @ Thu, 05 Dec 2019 15:11:28: 6000000 BedGraph に変換中... INFO @ Thu, 05 Dec 2019 15:11:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.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 @ Thu, 05 Dec 2019 15:11:32: #1 read tag files... INFO @ Thu, 05 Dec 2019 15:11:32: #1 read treatment tags... INFO @ Thu, 05 Dec 2019 15:11:33: 3000000 INFO @ Thu, 05 Dec 2019 15:11:37: 7000000 INFO @ Thu, 05 Dec 2019 15:11:45: 1000000 INFO @ Thu, 05 Dec 2019 15:11:47: 4000000 INFO @ Thu, 05 Dec 2019 15:11:47: 8000000 INFO @ Thu, 05 Dec 2019 15:11:56: 9000000 INFO @ Thu, 05 Dec 2019 15:11:57: 2000000 INFO @ Thu, 05 Dec 2019 15:11:57: 5000000 INFO @ Thu, 05 Dec 2019 15:12:05: 10000000 INFO @ Thu, 05 Dec 2019 15:12:08: 3000000 INFO @ Thu, 05 Dec 2019 15:12:09: 6000000 INFO @ Thu, 05 Dec 2019 15:12:16: 11000000 INFO @ Thu, 05 Dec 2019 15:12:18: 4000000 INFO @ Thu, 05 Dec 2019 15:12:20: 7000000 INFO @ Thu, 05 Dec 2019 15:12:27: 12000000 INFO @ Thu, 05 Dec 2019 15:12:27: 5000000 INFO @ Thu, 05 Dec 2019 15:12:31: 8000000 INFO @ Thu, 05 Dec 2019 15:12:37: 6000000 INFO @ Thu, 05 Dec 2019 15:12:37: 13000000 INFO @ Thu, 05 Dec 2019 15:12:41: 9000000 INFO @ Thu, 05 Dec 2019 15:12:47: 7000000 INFO @ Thu, 05 Dec 2019 15:12:47: 14000000 INFO @ Thu, 05 Dec 2019 15:12:51: 10000000 INFO @ Thu, 05 Dec 2019 15:12:56: 8000000 INFO @ Thu, 05 Dec 2019 15:12:57: 15000000 INFO @ Thu, 05 Dec 2019 15:13:01: 11000000 INFO @ Thu, 05 Dec 2019 15:13:06: 9000000 INFO @ Thu, 05 Dec 2019 15:13:07: 16000000 INFO @ Thu, 05 Dec 2019 15:13:12: 12000000 INFO @ Thu, 05 Dec 2019 15:13:17: 10000000 INFO @ Thu, 05 Dec 2019 15:13:18: 17000000 INFO @ Thu, 05 Dec 2019 15:13:22: 13000000 INFO @ Thu, 05 Dec 2019 15:13:26: 11000000 INFO @ Thu, 05 Dec 2019 15:13:27: 18000000 INFO @ Thu, 05 Dec 2019 15:13:30: 14000000 INFO @ Thu, 05 Dec 2019 15:13:34: 12000000 INFO @ Thu, 05 Dec 2019 15:13:35: 19000000 INFO @ Thu, 05 Dec 2019 15:13:39: 15000000 INFO @ Thu, 05 Dec 2019 15:13:44: 13000000 INFO @ Thu, 05 Dec 2019 15:13:45: 20000000 INFO @ Thu, 05 Dec 2019 15:13:47: 16000000 INFO @ Thu, 05 Dec 2019 15:13:53: 14000000 INFO @ Thu, 05 Dec 2019 15:13:54: 21000000 INFO @ Thu, 05 Dec 2019 15:13:56: 17000000 INFO @ Thu, 05 Dec 2019 15:14:03: 15000000 INFO @ Thu, 05 Dec 2019 15:14:04: 22000000 INFO @ Thu, 05 Dec 2019 15:14:04: 18000000 INFO @ Thu, 05 Dec 2019 15:14:13: 16000000 INFO @ Thu, 05 Dec 2019 15:14:13: 19000000 INFO @ Thu, 05 Dec 2019 15:14:13: 23000000 INFO @ Thu, 05 Dec 2019 15:14:21: 17000000 INFO @ Thu, 05 Dec 2019 15:14:22: 24000000 INFO @ Thu, 05 Dec 2019 15:14:22: 20000000 INFO @ Thu, 05 Dec 2019 15:14:29: 18000000 INFO @ Thu, 05 Dec 2019 15:14:31: 21000000 INFO @ Thu, 05 Dec 2019 15:14:32: 25000000 INFO @ Thu, 05 Dec 2019 15:14:38: 19000000 INFO @ Thu, 05 Dec 2019 15:14:39: 22000000 INFO @ Thu, 05 Dec 2019 15:14:41: 26000000 INFO @ Thu, 05 Dec 2019 15:14:46: 20000000 INFO @ Thu, 05 Dec 2019 15:14:47: 23000000 INFO @ Thu, 05 Dec 2019 15:14:49: 27000000 INFO @ Thu, 05 Dec 2019 15:14:54: 21000000 INFO @ Thu, 05 Dec 2019 15:14:55: 24000000 INFO @ Thu, 05 Dec 2019 15:14:57: 28000000 INFO @ Thu, 05 Dec 2019 15:15:03: 25000000 INFO @ Thu, 05 Dec 2019 15:15:04: 22000000 INFO @ Thu, 05 Dec 2019 15:15:06: 29000000 INFO @ Thu, 05 Dec 2019 15:15:11: 26000000 INFO @ Thu, 05 Dec 2019 15:15:13: 23000000 INFO @ Thu, 05 Dec 2019 15:15:16: 30000000 INFO @ Thu, 05 Dec 2019 15:15:20: 27000000 INFO @ Thu, 05 Dec 2019 15:15:22: 24000000 INFO @ Thu, 05 Dec 2019 15:15:25: 31000000 INFO @ Thu, 05 Dec 2019 15:15:30: 28000000 INFO @ Thu, 05 Dec 2019 15:15:32: 25000000 INFO @ Thu, 05 Dec 2019 15:15:36: 32000000 INFO @ Thu, 05 Dec 2019 15:15:40: 29000000 INFO @ Thu, 05 Dec 2019 15:15:41: 26000000 INFO @ Thu, 05 Dec 2019 15:15:44: 33000000 INFO @ Thu, 05 Dec 2019 15:15:49: 30000000 INFO @ Thu, 05 Dec 2019 15:15:50: 27000000 INFO @ Thu, 05 Dec 2019 15:15:54: 34000000 INFO @ Thu, 05 Dec 2019 15:15:59: 31000000 INFO @ Thu, 05 Dec 2019 15:16:00: 28000000 INFO @ Thu, 05 Dec 2019 15:16:04: 35000000 INFO @ Thu, 05 Dec 2019 15:16:08: 29000000 INFO @ Thu, 05 Dec 2019 15:16:09: 32000000 INFO @ Thu, 05 Dec 2019 15:16:16: 36000000 INFO @ Thu, 05 Dec 2019 15:16:18: 30000000 INFO @ Thu, 05 Dec 2019 15:16:19: 33000000 INFO @ Thu, 05 Dec 2019 15:16:26: 37000000 INFO @ Thu, 05 Dec 2019 15:16:27: 31000000 INFO @ Thu, 05 Dec 2019 15:16:27: 34000000 INFO @ Thu, 05 Dec 2019 15:16:35: 32000000 INFO @ Thu, 05 Dec 2019 15:16:36: 35000000 INFO @ Thu, 05 Dec 2019 15:16:37: 38000000 INFO @ Thu, 05 Dec 2019 15:16:44: 33000000 INFO @ Thu, 05 Dec 2019 15:16:44: 36000000 INFO @ Thu, 05 Dec 2019 15:16:46: 39000000 INFO @ Thu, 05 Dec 2019 15:16:51: 34000000 INFO @ Thu, 05 Dec 2019 15:16:51: 37000000 INFO @ Thu, 05 Dec 2019 15:16:54: 40000000 INFO @ Thu, 05 Dec 2019 15:16:59: 38000000 INFO @ Thu, 05 Dec 2019 15:16:59: 35000000 INFO @ Thu, 05 Dec 2019 15:17:03: 41000000 INFO @ Thu, 05 Dec 2019 15:17:07: 39000000 INFO @ Thu, 05 Dec 2019 15:17:07: 36000000 INFO @ Thu, 05 Dec 2019 15:17:10: 42000000 INFO @ Thu, 05 Dec 2019 15:17:14: 40000000 INFO @ Thu, 05 Dec 2019 15:17:15: 37000000 INFO @ Thu, 05 Dec 2019 15:17:18: 43000000 INFO @ Thu, 05 Dec 2019 15:17:22: 41000000 INFO @ Thu, 05 Dec 2019 15:17:24: 38000000 INFO @ Thu, 05 Dec 2019 15:17:27: 44000000 INFO @ Thu, 05 Dec 2019 15:17:31: 42000000 INFO @ Thu, 05 Dec 2019 15:17:34: 39000000 INFO @ Thu, 05 Dec 2019 15:17:37: 45000000 INFO @ Thu, 05 Dec 2019 15:17:41: 43000000 INFO @ Thu, 05 Dec 2019 15:17:42: 40000000 INFO @ Thu, 05 Dec 2019 15:17:46: 46000000 INFO @ Thu, 05 Dec 2019 15:17:50: 44000000 INFO @ Thu, 05 Dec 2019 15:17:51: 41000000 INFO @ Thu, 05 Dec 2019 15:17:54: 47000000 INFO @ Thu, 05 Dec 2019 15:17:59: 45000000 INFO @ Thu, 05 Dec 2019 15:18:00: 42000000 INFO @ Thu, 05 Dec 2019 15:18:02: 48000000 INFO @ Thu, 05 Dec 2019 15:18:08: 46000000 INFO @ Thu, 05 Dec 2019 15:18:10: 49000000 INFO @ Thu, 05 Dec 2019 15:18:10: 43000000 INFO @ Thu, 05 Dec 2019 15:18:17: 47000000 INFO @ Thu, 05 Dec 2019 15:18:18: 50000000 INFO @ Thu, 05 Dec 2019 15:18:21: 44000000 INFO @ Thu, 05 Dec 2019 15:18:25: 48000000 INFO @ Thu, 05 Dec 2019 15:18:25: 51000000 INFO @ Thu, 05 Dec 2019 15:18:31: 45000000 INFO @ Thu, 05 Dec 2019 15:18:34: 52000000 INFO @ Thu, 05 Dec 2019 15:18:35: 49000000 INFO @ Thu, 05 Dec 2019 15:18:40: 46000000 INFO @ Thu, 05 Dec 2019 15:18:42: 53000000 INFO @ Thu, 05 Dec 2019 15:18:43: 50000000 INFO @ Thu, 05 Dec 2019 15:18:49: 47000000 INFO @ Thu, 05 Dec 2019 15:18:49: #1 tag size is determined as 75 bps INFO @ Thu, 05 Dec 2019 15:18:49: #1 tag size = 75 INFO @ Thu, 05 Dec 2019 15:18:49: #1 total tags in treatment: 53747311 INFO @ Thu, 05 Dec 2019 15:18:49: #1 user defined the maximum tags... INFO @ Thu, 05 Dec 2019 15:18:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Dec 2019 15:18:50: #1 tags after filtering in treatment: 53747311 INFO @ Thu, 05 Dec 2019 15:18:50: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 05 Dec 2019 15:18:50: #1 finished! INFO @ Thu, 05 Dec 2019 15:18:50: #2 Build Peak Model... INFO @ Thu, 05 Dec 2019 15:18:50: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Dec 2019 15:18:52: 51000000 INFO @ Thu, 05 Dec 2019 15:18:56: #2 number of paired peaks: 0 WARNING @ Thu, 05 Dec 2019 15:18:56: 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 @ Thu, 05 Dec 2019 15:18:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.05_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/SRX7158304/SRX7158304.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 05 Dec 2019 15:18:58: 48000000 INFO @ Thu, 05 Dec 2019 15:19:02: 52000000 INFO @ Thu, 05 Dec 2019 15:19:07: 49000000 INFO @ Thu, 05 Dec 2019 15:19:11: 53000000 INFO @ Thu, 05 Dec 2019 15:19:16: 50000000 INFO @ Thu, 05 Dec 2019 15:19:20: #1 tag size is determined as 75 bps INFO @ Thu, 05 Dec 2019 15:19:20: #1 tag size = 75 INFO @ Thu, 05 Dec 2019 15:19:20: #1 total tags in treatment: 53747311 INFO @ Thu, 05 Dec 2019 15:19:20: #1 user defined the maximum tags... INFO @ Thu, 05 Dec 2019 15:19:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Dec 2019 15:19:21: #1 tags after filtering in treatment: 53747311 INFO @ Thu, 05 Dec 2019 15:19:21: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 05 Dec 2019 15:19:21: #1 finished! INFO @ Thu, 05 Dec 2019 15:19:21: #2 Build Peak Model... INFO @ Thu, 05 Dec 2019 15:19:21: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Dec 2019 15:19:24: 51000000 INFO @ Thu, 05 Dec 2019 15:19:26: #2 number of paired peaks: 0 WARNING @ Thu, 05 Dec 2019 15:19:26: 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 @ Thu, 05 Dec 2019 15:19:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.10_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/dm3/SRX7158304/SRX7158304.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 05 Dec 2019 15:19:33: 52000000 INFO @ Thu, 05 Dec 2019 15:19:44: 53000000 INFO @ Thu, 05 Dec 2019 15:19:53: #1 tag size is determined as 75 bps INFO @ Thu, 05 Dec 2019 15:19:53: #1 tag size = 75 INFO @ Thu, 05 Dec 2019 15:19:53: #1 total tags in treatment: 53747311 INFO @ Thu, 05 Dec 2019 15:19:53: #1 user defined the maximum tags... INFO @ Thu, 05 Dec 2019 15:19:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Dec 2019 15:19:54: #1 tags after filtering in treatment: 53747311 INFO @ Thu, 05 Dec 2019 15:19:54: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 05 Dec 2019 15:19:54: #1 finished! INFO @ Thu, 05 Dec 2019 15:19:54: #2 Build Peak Model... INFO @ Thu, 05 Dec 2019 15:19:54: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Dec 2019 15:20:00: #2 number of paired peaks: 0 WARNING @ Thu, 05 Dec 2019 15:20:00: 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 @ Thu, 05 Dec 2019 15:20:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.20_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/SRX7158304/SRX7158304.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7158304/SRX7158304.20_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。