Job ID = 2590338 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 15,538,549 reads read : 31,077,098 reads written : 15,538,549 reads 0-length : 15,538,549 2019-08-12T11:53:51 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 ) 2019-08-12T11:53:51 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 : 15,132,011 reads read : 30,264,022 reads written : 15,132,011 reads 0-length : 15,132,011 spots read : 15,517,808 reads read : 31,035,616 reads written : 15,517,808 reads 0-length : 15,517,808 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: 00:15:51 46188368 reads; of these: 46188368 (100.00%) were unpaired; of these: 1243782 (2.69%) aligned 0 times 34468325 (74.63%) aligned exactly 1 time 10476261 (22.68%) aligned >1 times 97.31% overall alignment rate Time searching: 00:15:51 Overall time: 00:15:51 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 20 files... [bam_rmdupse_core] 5584467 / 44944586 = 0.1243 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 21:32:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.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, 12 Aug 2019 21:32:37: #1 read tag files... INFO @ Mon, 12 Aug 2019 21:32:37: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 21:32:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.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, 12 Aug 2019 21:32:38: #1 read tag files... INFO @ Mon, 12 Aug 2019 21:32:38: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 21:32:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.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, 12 Aug 2019 21:32:39: #1 read tag files... INFO @ Mon, 12 Aug 2019 21:32:39: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 21:32:45: 1000000 INFO @ Mon, 12 Aug 2019 21:32:45: 1000000 INFO @ Mon, 12 Aug 2019 21:32:48: 1000000 INFO @ Mon, 12 Aug 2019 21:32:52: 2000000 INFO @ Mon, 12 Aug 2019 21:32:53: 2000000 INFO @ Mon, 12 Aug 2019 21:32:56: 2000000 INFO @ Mon, 12 Aug 2019 21:32:59: 3000000 INFO @ Mon, 12 Aug 2019 21:33:00: 3000000 INFO @ Mon, 12 Aug 2019 21:33:05: 3000000 INFO @ Mon, 12 Aug 2019 21:33:06: 4000000 INFO @ Mon, 12 Aug 2019 21:33:08: 4000000 INFO @ Mon, 12 Aug 2019 21:33:13: 5000000 INFO @ Mon, 12 Aug 2019 21:33:13: 4000000 INFO @ Mon, 12 Aug 2019 21:33:15: 5000000 INFO @ Mon, 12 Aug 2019 21:33:19: 6000000 INFO @ Mon, 12 Aug 2019 21:33:22: 5000000 INFO @ Mon, 12 Aug 2019 21:33:23: 6000000 INFO @ Mon, 12 Aug 2019 21:33:26: 7000000 INFO @ Mon, 12 Aug 2019 21:33:30: 6000000 INFO @ Mon, 12 Aug 2019 21:33:30: 7000000 INFO @ Mon, 12 Aug 2019 21:33:33: 8000000 INFO @ Mon, 12 Aug 2019 21:33:38: 8000000 INFO @ Mon, 12 Aug 2019 21:33:39: 7000000 INFO @ Mon, 12 Aug 2019 21:33:40: 9000000 INFO @ Mon, 12 Aug 2019 21:33:45: 9000000 INFO @ Mon, 12 Aug 2019 21:33:46: 10000000 INFO @ Mon, 12 Aug 2019 21:33:47: 8000000 INFO @ Mon, 12 Aug 2019 21:33:53: 10000000 INFO @ Mon, 12 Aug 2019 21:33:53: 11000000 INFO @ Mon, 12 Aug 2019 21:33:55: 9000000 INFO @ Mon, 12 Aug 2019 21:34:00: 12000000 INFO @ Mon, 12 Aug 2019 21:34:00: 11000000 INFO @ Mon, 12 Aug 2019 21:34:04: 10000000 INFO @ Mon, 12 Aug 2019 21:34:07: 13000000 INFO @ Mon, 12 Aug 2019 21:34:08: 12000000 INFO @ Mon, 12 Aug 2019 21:34:12: 11000000 INFO @ Mon, 12 Aug 2019 21:34:14: 14000000 INFO @ Mon, 12 Aug 2019 21:34:15: 13000000 INFO @ Mon, 12 Aug 2019 21:34:20: 15000000 INFO @ Mon, 12 Aug 2019 21:34:21: 12000000 INFO @ Mon, 12 Aug 2019 21:34:22: 14000000 INFO @ Mon, 12 Aug 2019 21:34:27: 16000000 INFO @ Mon, 12 Aug 2019 21:34:29: 13000000 INFO @ Mon, 12 Aug 2019 21:34:30: 15000000 INFO @ Mon, 12 Aug 2019 21:34:34: 17000000 INFO @ Mon, 12 Aug 2019 21:34:37: 16000000 INFO @ Mon, 12 Aug 2019 21:34:38: 14000000 INFO @ Mon, 12 Aug 2019 21:34:41: 18000000 INFO @ Mon, 12 Aug 2019 21:34:45: 17000000 INFO @ Mon, 12 Aug 2019 21:34:46: 15000000 INFO @ Mon, 12 Aug 2019 21:34:48: 19000000 INFO @ Mon, 12 Aug 2019 21:34:52: 18000000 INFO @ Mon, 12 Aug 2019 21:34:54: 20000000 INFO @ Mon, 12 Aug 2019 21:34:54: 16000000 INFO @ Mon, 12 Aug 2019 21:35:00: 19000000 INFO @ Mon, 12 Aug 2019 21:35:01: 21000000 INFO @ Mon, 12 Aug 2019 21:35:03: 17000000 INFO @ Mon, 12 Aug 2019 21:35:07: 20000000 INFO @ Mon, 12 Aug 2019 21:35:08: 22000000 INFO @ Mon, 12 Aug 2019 21:35:11: 18000000 INFO @ Mon, 12 Aug 2019 21:35:15: 21000000 INFO @ Mon, 12 Aug 2019 21:35:15: 23000000 INFO @ Mon, 12 Aug 2019 21:35:20: 19000000 INFO @ Mon, 12 Aug 2019 21:35:21: 24000000 INFO @ Mon, 12 Aug 2019 21:35:22: 22000000 INFO @ Mon, 12 Aug 2019 21:35:28: 25000000 INFO @ Mon, 12 Aug 2019 21:35:28: 20000000 INFO @ Mon, 12 Aug 2019 21:35:29: 23000000 INFO @ Mon, 12 Aug 2019 21:35:35: 26000000 INFO @ Mon, 12 Aug 2019 21:35:37: 21000000 INFO @ Mon, 12 Aug 2019 21:35:37: 24000000 INFO @ Mon, 12 Aug 2019 21:35:42: 27000000 INFO @ Mon, 12 Aug 2019 21:35:44: 25000000 INFO @ Mon, 12 Aug 2019 21:35:45: 22000000 INFO @ Mon, 12 Aug 2019 21:35:48: 28000000 INFO @ Mon, 12 Aug 2019 21:35:51: 26000000 INFO @ Mon, 12 Aug 2019 21:35:53: 23000000 INFO @ Mon, 12 Aug 2019 21:35:55: 29000000 INFO @ Mon, 12 Aug 2019 21:35:59: 27000000 INFO @ Mon, 12 Aug 2019 21:36:02: 24000000 INFO @ Mon, 12 Aug 2019 21:36:02: 30000000 INFO @ Mon, 12 Aug 2019 21:36:06: 28000000 INFO @ Mon, 12 Aug 2019 21:36:09: 31000000 INFO @ Mon, 12 Aug 2019 21:36:10: 25000000 INFO @ Mon, 12 Aug 2019 21:36:14: 29000000 INFO @ Mon, 12 Aug 2019 21:36:15: 32000000 INFO @ Mon, 12 Aug 2019 21:36:18: 26000000 INFO @ Mon, 12 Aug 2019 21:36:21: 30000000 INFO @ Mon, 12 Aug 2019 21:36:22: 33000000 INFO @ Mon, 12 Aug 2019 21:36:27: 27000000 INFO @ Mon, 12 Aug 2019 21:36:29: 31000000 INFO @ Mon, 12 Aug 2019 21:36:29: 34000000 INFO @ Mon, 12 Aug 2019 21:36:35: 28000000 INFO @ Mon, 12 Aug 2019 21:36:36: 35000000 INFO @ Mon, 12 Aug 2019 21:36:36: 32000000 INFO @ Mon, 12 Aug 2019 21:36:42: 36000000 INFO @ Mon, 12 Aug 2019 21:36:43: 33000000 INFO @ Mon, 12 Aug 2019 21:36:43: 29000000 INFO @ Mon, 12 Aug 2019 21:36:49: 37000000 INFO @ Mon, 12 Aug 2019 21:36:51: 34000000 INFO @ Mon, 12 Aug 2019 21:36:52: 30000000 INFO @ Mon, 12 Aug 2019 21:36:56: 38000000 INFO @ Mon, 12 Aug 2019 21:36:58: 35000000 INFO @ Mon, 12 Aug 2019 21:37:00: 31000000 INFO @ Mon, 12 Aug 2019 21:37:03: 39000000 INFO @ Mon, 12 Aug 2019 21:37:06: 36000000 INFO @ Mon, 12 Aug 2019 21:37:06: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 21:37:06: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 21:37:06: #1 total tags in treatment: 39360119 INFO @ Mon, 12 Aug 2019 21:37:06: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 21:37:06: #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 21:37:06: #1 tags after filtering in treatment: 39360119 INFO @ Mon, 12 Aug 2019 21:37:06: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 21:37:06: #1 finished! INFO @ Mon, 12 Aug 2019 21:37:06: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 21:37:06: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 21:37:09: 32000000 INFO @ Mon, 12 Aug 2019 21:37:10: #2 number of paired peaks: 16 WARNING @ Mon, 12 Aug 2019 21:37:10: Too few paired peaks (16) 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 21:37:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.10_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/SRX3981615/SRX3981615.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 21:37:13: 37000000 INFO @ Mon, 12 Aug 2019 21:37:17: 33000000 INFO @ Mon, 12 Aug 2019 21:37:20: 38000000 INFO @ Mon, 12 Aug 2019 21:37:25: 34000000 INFO @ Mon, 12 Aug 2019 21:37:28: 39000000 INFO @ Mon, 12 Aug 2019 21:37:31: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 21:37:31: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 21:37:31: #1 total tags in treatment: 39360119 INFO @ Mon, 12 Aug 2019 21:37:31: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 21:37:31: #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 21:37:32: #1 tags after filtering in treatment: 39360119 INFO @ Mon, 12 Aug 2019 21:37:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 21:37:32: #1 finished! INFO @ Mon, 12 Aug 2019 21:37:32: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 21:37:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 21:37:34: 35000000 INFO @ Mon, 12 Aug 2019 21:37:35: #2 number of paired peaks: 16 WARNING @ Mon, 12 Aug 2019 21:37:35: Too few paired peaks (16) 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 21:37:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.05_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/SRX3981615/SRX3981615.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 21:37:42: 36000000 INFO @ Mon, 12 Aug 2019 21:37:50: 37000000 INFO @ Mon, 12 Aug 2019 21:37:59: 38000000 INFO @ Mon, 12 Aug 2019 21:38:07: 39000000 INFO @ Mon, 12 Aug 2019 21:38:10: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 21:38:10: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 21:38:10: #1 total tags in treatment: 39360119 INFO @ Mon, 12 Aug 2019 21:38:10: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 21:38:10: #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 21:38:11: #1 tags after filtering in treatment: 39360119 INFO @ Mon, 12 Aug 2019 21:38:11: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 21:38:11: #1 finished! INFO @ Mon, 12 Aug 2019 21:38:11: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 21:38:11: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 21:38:14: #2 number of paired peaks: 16 WARNING @ Mon, 12 Aug 2019 21:38:14: Too few paired peaks (16) 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 21:38:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.20_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/SRX3981615/SRX3981615.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981615/SRX3981615.20_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。