Job ID = 1293876 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-02T17:55:58 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 : 152,726,695 reads read : 152,726,695 reads written : 152,726,695 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: 00:34:16 152726695 reads; of these: 152726695 (100.00%) were unpaired; of these: 21920212 (14.35%) aligned 0 times 119136691 (78.01%) aligned exactly 1 time 11669792 (7.64%) aligned >1 times 85.65% overall alignment rate Time searching: 00:34:16 Overall time: 00:34:16 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 56 files... [bam_rmdupse_core] 77365798 / 130806483 = 0.5915 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 04:07:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.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 04:07:30: #1 read tag files... INFO @ Mon, 03 Jun 2019 04:07:30: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 04:07:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.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 04:07:30: #1 read tag files... INFO @ Mon, 03 Jun 2019 04:07:30: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 04:07:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.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 04:07:30: #1 read tag files... INFO @ Mon, 03 Jun 2019 04:07:30: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 04:07:39: 1000000 INFO @ Mon, 03 Jun 2019 04:07:39: 1000000 INFO @ Mon, 03 Jun 2019 04:07:40: 1000000 INFO @ Mon, 03 Jun 2019 04:07:48: 2000000 INFO @ Mon, 03 Jun 2019 04:07:48: 2000000 INFO @ Mon, 03 Jun 2019 04:07:50: 2000000 INFO @ Mon, 03 Jun 2019 04:07:56: 3000000 INFO @ Mon, 03 Jun 2019 04:07:56: 3000000 INFO @ Mon, 03 Jun 2019 04:08:00: 3000000 INFO @ Mon, 03 Jun 2019 04:08:05: 4000000 INFO @ Mon, 03 Jun 2019 04:08:05: 4000000 INFO @ Mon, 03 Jun 2019 04:08:10: 4000000 INFO @ Mon, 03 Jun 2019 04:08:14: 5000000 INFO @ Mon, 03 Jun 2019 04:08:14: 5000000 INFO @ Mon, 03 Jun 2019 04:08:19: 5000000 INFO @ Mon, 03 Jun 2019 04:08:23: 6000000 INFO @ Mon, 03 Jun 2019 04:08:23: 6000000 INFO @ Mon, 03 Jun 2019 04:08:29: 6000000 INFO @ Mon, 03 Jun 2019 04:08:31: 7000000 INFO @ Mon, 03 Jun 2019 04:08:31: 7000000 INFO @ Mon, 03 Jun 2019 04:08:39: 7000000 INFO @ Mon, 03 Jun 2019 04:08:40: 8000000 INFO @ Mon, 03 Jun 2019 04:08:40: 8000000 INFO @ Mon, 03 Jun 2019 04:08:48: 8000000 INFO @ Mon, 03 Jun 2019 04:08:49: 9000000 INFO @ Mon, 03 Jun 2019 04:08:49: 9000000 INFO @ Mon, 03 Jun 2019 04:08:57: 10000000 INFO @ Mon, 03 Jun 2019 04:08:57: 10000000 INFO @ Mon, 03 Jun 2019 04:08:58: 9000000 INFO @ Mon, 03 Jun 2019 04:09:06: 11000000 INFO @ Mon, 03 Jun 2019 04:09:06: 11000000 INFO @ Mon, 03 Jun 2019 04:09:08: 10000000 INFO @ Mon, 03 Jun 2019 04:09:15: 12000000 INFO @ Mon, 03 Jun 2019 04:09:15: 12000000 INFO @ Mon, 03 Jun 2019 04:09:17: 11000000 INFO @ Mon, 03 Jun 2019 04:09:24: 13000000 INFO @ Mon, 03 Jun 2019 04:09:25: 13000000 INFO @ Mon, 03 Jun 2019 04:09:28: 12000000 INFO @ Mon, 03 Jun 2019 04:09:33: 14000000 INFO @ Mon, 03 Jun 2019 04:09:35: 14000000 INFO @ Mon, 03 Jun 2019 04:09:38: 13000000 INFO @ Mon, 03 Jun 2019 04:09:42: 15000000 INFO @ Mon, 03 Jun 2019 04:09:44: 15000000 INFO @ Mon, 03 Jun 2019 04:09:48: 14000000 INFO @ Mon, 03 Jun 2019 04:09:50: 16000000 INFO @ Mon, 03 Jun 2019 04:09:54: 16000000 INFO @ Mon, 03 Jun 2019 04:09:59: 15000000 INFO @ Mon, 03 Jun 2019 04:09:59: 17000000 INFO @ Mon, 03 Jun 2019 04:10:03: 17000000 INFO @ Mon, 03 Jun 2019 04:10:08: 18000000 INFO @ Mon, 03 Jun 2019 04:10:09: 16000000 INFO @ Mon, 03 Jun 2019 04:10:13: 18000000 INFO @ Mon, 03 Jun 2019 04:10:17: 19000000 INFO @ Mon, 03 Jun 2019 04:10:18: 17000000 INFO @ Mon, 03 Jun 2019 04:10:23: 19000000 INFO @ Mon, 03 Jun 2019 04:10:25: 20000000 INFO @ Mon, 03 Jun 2019 04:10:29: 18000000 INFO @ Mon, 03 Jun 2019 04:10:32: 20000000 INFO @ Mon, 03 Jun 2019 04:10:34: 21000000 INFO @ Mon, 03 Jun 2019 04:10:39: 19000000 INFO @ Mon, 03 Jun 2019 04:10:41: 21000000 INFO @ Mon, 03 Jun 2019 04:10:42: 22000000 INFO @ Mon, 03 Jun 2019 04:10:48: 20000000 INFO @ Mon, 03 Jun 2019 04:10:49: 22000000 INFO @ Mon, 03 Jun 2019 04:10:51: 23000000 INFO @ Mon, 03 Jun 2019 04:10:57: 23000000 INFO @ Mon, 03 Jun 2019 04:10:58: 21000000 INFO @ Mon, 03 Jun 2019 04:10:59: 24000000 INFO @ Mon, 03 Jun 2019 04:11:06: 24000000 INFO @ Mon, 03 Jun 2019 04:11:07: 25000000 INFO @ Mon, 03 Jun 2019 04:11:08: 22000000 INFO @ Mon, 03 Jun 2019 04:11:14: 25000000 INFO @ Mon, 03 Jun 2019 04:11:15: 26000000 INFO @ Mon, 03 Jun 2019 04:11:17: 23000000 INFO @ Mon, 03 Jun 2019 04:11:22: 26000000 INFO @ Mon, 03 Jun 2019 04:11:23: 27000000 INFO @ Mon, 03 Jun 2019 04:11:27: 24000000 INFO @ Mon, 03 Jun 2019 04:11:30: 27000000 INFO @ Mon, 03 Jun 2019 04:11:31: 28000000 INFO @ Mon, 03 Jun 2019 04:11:36: 25000000 INFO @ Mon, 03 Jun 2019 04:11:39: 28000000 INFO @ Mon, 03 Jun 2019 04:11:39: 29000000 INFO @ Mon, 03 Jun 2019 04:11:46: 26000000 INFO @ Mon, 03 Jun 2019 04:11:47: 29000000 INFO @ Mon, 03 Jun 2019 04:11:48: 30000000 INFO @ Mon, 03 Jun 2019 04:11:55: 30000000 INFO @ Mon, 03 Jun 2019 04:11:55: 27000000 INFO @ Mon, 03 Jun 2019 04:11:56: 31000000 INFO @ Mon, 03 Jun 2019 04:12:03: 31000000 INFO @ Mon, 03 Jun 2019 04:12:04: 32000000 INFO @ Mon, 03 Jun 2019 04:12:05: 28000000 INFO @ Mon, 03 Jun 2019 04:12:11: 32000000 INFO @ Mon, 03 Jun 2019 04:12:12: 33000000 INFO @ Mon, 03 Jun 2019 04:12:14: 29000000 INFO @ Mon, 03 Jun 2019 04:12:19: 33000000 INFO @ Mon, 03 Jun 2019 04:12:20: 34000000 INFO @ Mon, 03 Jun 2019 04:12:24: 30000000 INFO @ Mon, 03 Jun 2019 04:12:27: 34000000 INFO @ Mon, 03 Jun 2019 04:12:28: 35000000 INFO @ Mon, 03 Jun 2019 04:12:33: 31000000 INFO @ Mon, 03 Jun 2019 04:12:36: 35000000 INFO @ Mon, 03 Jun 2019 04:12:36: 36000000 INFO @ Mon, 03 Jun 2019 04:12:43: 32000000 INFO @ Mon, 03 Jun 2019 04:12:44: 36000000 INFO @ Mon, 03 Jun 2019 04:12:45: 37000000 INFO @ Mon, 03 Jun 2019 04:12:52: 37000000 INFO @ Mon, 03 Jun 2019 04:12:52: 33000000 INFO @ Mon, 03 Jun 2019 04:12:53: 38000000 INFO @ Mon, 03 Jun 2019 04:13:00: 38000000 INFO @ Mon, 03 Jun 2019 04:13:01: 39000000 INFO @ Mon, 03 Jun 2019 04:13:02: 34000000 INFO @ Mon, 03 Jun 2019 04:13:08: 39000000 INFO @ Mon, 03 Jun 2019 04:13:09: 40000000 INFO @ Mon, 03 Jun 2019 04:13:11: 35000000 INFO @ Mon, 03 Jun 2019 04:13:16: 40000000 INFO @ Mon, 03 Jun 2019 04:13:17: 41000000 INFO @ Mon, 03 Jun 2019 04:13:21: 36000000 INFO @ Mon, 03 Jun 2019 04:13:24: 41000000 INFO @ Mon, 03 Jun 2019 04:13:25: 42000000 INFO @ Mon, 03 Jun 2019 04:13:30: 37000000 INFO @ Mon, 03 Jun 2019 04:13:33: 42000000 INFO @ Mon, 03 Jun 2019 04:13:33: 43000000 INFO @ Mon, 03 Jun 2019 04:13:40: 38000000 INFO @ Mon, 03 Jun 2019 04:13:41: 43000000 INFO @ Mon, 03 Jun 2019 04:13:42: 44000000 INFO @ Mon, 03 Jun 2019 04:13:49: 39000000 INFO @ Mon, 03 Jun 2019 04:13:50: 44000000 INFO @ Mon, 03 Jun 2019 04:13:51: 45000000 INFO @ Mon, 03 Jun 2019 04:13:58: 40000000 INFO @ Mon, 03 Jun 2019 04:13:59: 45000000 INFO @ Mon, 03 Jun 2019 04:14:00: 46000000 INFO @ Mon, 03 Jun 2019 04:14:07: 46000000 INFO @ Mon, 03 Jun 2019 04:14:08: 41000000 INFO @ Mon, 03 Jun 2019 04:14:08: 47000000 INFO @ Mon, 03 Jun 2019 04:14:16: 47000000 INFO @ Mon, 03 Jun 2019 04:14:17: 48000000 INFO @ Mon, 03 Jun 2019 04:14:17: 42000000 INFO @ Mon, 03 Jun 2019 04:14:25: 48000000 INFO @ Mon, 03 Jun 2019 04:14:25: 49000000 INFO @ Mon, 03 Jun 2019 04:14:27: 43000000 INFO @ Mon, 03 Jun 2019 04:14:33: 49000000 INFO @ Mon, 03 Jun 2019 04:14:33: 50000000 INFO @ Mon, 03 Jun 2019 04:14:37: 44000000 INFO @ Mon, 03 Jun 2019 04:14:41: 50000000 INFO @ Mon, 03 Jun 2019 04:14:42: 51000000 INFO @ Mon, 03 Jun 2019 04:14:47: 45000000 INFO @ Mon, 03 Jun 2019 04:14:49: 51000000 INFO @ Mon, 03 Jun 2019 04:14:50: 52000000 INFO @ Mon, 03 Jun 2019 04:14:57: 52000000 INFO @ Mon, 03 Jun 2019 04:14:58: 46000000 INFO @ Mon, 03 Jun 2019 04:14:58: 53000000 INFO @ Mon, 03 Jun 2019 04:15:02: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 04:15:02: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 04:15:02: #1 total tags in treatment: 53440685 INFO @ Mon, 03 Jun 2019 04:15:02: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 04:15:02: #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 04:15:03: #1 tags after filtering in treatment: 53440685 INFO @ Mon, 03 Jun 2019 04:15:03: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 04:15:03: #1 finished! INFO @ Mon, 03 Jun 2019 04:15:03: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 04:15:03: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 04:15:06: 53000000 INFO @ Mon, 03 Jun 2019 04:15:08: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 04:15:08: 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, 03 Jun 2019 04:15:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.05_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/SRX135519/SRX135519.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 04:15:08: 47000000 INFO @ Mon, 03 Jun 2019 04:15:10: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 04:15:10: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 04:15:10: #1 total tags in treatment: 53440685 INFO @ Mon, 03 Jun 2019 04:15:10: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 04:15:10: #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 04:15:11: #1 tags after filtering in treatment: 53440685 INFO @ Mon, 03 Jun 2019 04:15:11: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 04:15:11: #1 finished! INFO @ Mon, 03 Jun 2019 04:15:11: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 04:15:11: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 04:15:15: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 04:15:15: 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, 03 Jun 2019 04:15:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.10_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/SRX135519/SRX135519.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 04:15:18: 48000000 INFO @ Mon, 03 Jun 2019 04:15:27: 49000000 INFO @ Mon, 03 Jun 2019 04:15:36: 50000000 INFO @ Mon, 03 Jun 2019 04:15:45: 51000000 INFO @ Mon, 03 Jun 2019 04:15:55: 52000000 INFO @ Mon, 03 Jun 2019 04:16:04: 53000000 INFO @ Mon, 03 Jun 2019 04:16:08: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 04:16:08: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 04:16:08: #1 total tags in treatment: 53440685 INFO @ Mon, 03 Jun 2019 04:16:08: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 04:16:08: #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 04:16:09: #1 tags after filtering in treatment: 53440685 INFO @ Mon, 03 Jun 2019 04:16:09: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 04:16:09: #1 finished! INFO @ Mon, 03 Jun 2019 04:16:09: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 04:16:09: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 04:16:14: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 04:16:14: 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, 03 Jun 2019 04:16:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.20_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/dm3/SRX135519/SRX135519.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135519/SRX135519.20_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。