Job ID = 1293669 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-02T16:32:30 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 : 22,345,104 reads read : 22,345,104 reads written : 22,345,104 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: 00:07:25 22345104 reads; of these: 22345104 (100.00%) were unpaired; of these: 663200 (2.97%) aligned 0 times 17727694 (79.34%) aligned exactly 1 time 3954210 (17.70%) aligned >1 times 97.03% overall alignment rate Time searching: 00:07:25 Overall time: 00:07:25 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 8 files... [bam_rmdupse_core] 2660294 / 21681904 = 0.1227 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 01:45:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.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 01:45:23: #1 read tag files... INFO @ Mon, 03 Jun 2019 01:45:23: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 01:45:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.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 01:45:23: #1 read tag files... INFO @ Mon, 03 Jun 2019 01:45:23: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 01:45:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.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 01:45:23: #1 read tag files... INFO @ Mon, 03 Jun 2019 01:45:23: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 01:45:31: 1000000 INFO @ Mon, 03 Jun 2019 01:45:32: 1000000 INFO @ Mon, 03 Jun 2019 01:45:32: 1000000 INFO @ Mon, 03 Jun 2019 01:45:40: 2000000 INFO @ Mon, 03 Jun 2019 01:45:40: 2000000 INFO @ Mon, 03 Jun 2019 01:45:41: 2000000 INFO @ Mon, 03 Jun 2019 01:45:48: 3000000 INFO @ Mon, 03 Jun 2019 01:45:49: 3000000 INFO @ Mon, 03 Jun 2019 01:45:50: 3000000 INFO @ Mon, 03 Jun 2019 01:45:56: 4000000 INFO @ Mon, 03 Jun 2019 01:45:57: 4000000 INFO @ Mon, 03 Jun 2019 01:45:59: 4000000 INFO @ Mon, 03 Jun 2019 01:46:04: 5000000 INFO @ Mon, 03 Jun 2019 01:46:05: 5000000 INFO @ Mon, 03 Jun 2019 01:46:08: 5000000 INFO @ Mon, 03 Jun 2019 01:46:11: 6000000 INFO @ Mon, 03 Jun 2019 01:46:12: 6000000 INFO @ Mon, 03 Jun 2019 01:46:16: 6000000 INFO @ Mon, 03 Jun 2019 01:46:19: 7000000 INFO @ Mon, 03 Jun 2019 01:46:21: 7000000 INFO @ Mon, 03 Jun 2019 01:46:25: 7000000 INFO @ Mon, 03 Jun 2019 01:46:28: 8000000 INFO @ Mon, 03 Jun 2019 01:46:29: 8000000 INFO @ Mon, 03 Jun 2019 01:46:34: 8000000 INFO @ Mon, 03 Jun 2019 01:46:37: 9000000 INFO @ Mon, 03 Jun 2019 01:46:37: 9000000 INFO @ Mon, 03 Jun 2019 01:46:42: 9000000 INFO @ Mon, 03 Jun 2019 01:46:45: 10000000 INFO @ Mon, 03 Jun 2019 01:46:46: 10000000 INFO @ Mon, 03 Jun 2019 01:46:52: 10000000 INFO @ Mon, 03 Jun 2019 01:46:54: 11000000 INFO @ Mon, 03 Jun 2019 01:46:55: 11000000 INFO @ Mon, 03 Jun 2019 01:47:01: 11000000 INFO @ Mon, 03 Jun 2019 01:47:02: 12000000 INFO @ Mon, 03 Jun 2019 01:47:03: 12000000 INFO @ Mon, 03 Jun 2019 01:47:10: 12000000 INFO @ Mon, 03 Jun 2019 01:47:10: 13000000 INFO @ Mon, 03 Jun 2019 01:47:11: 13000000 INFO @ Mon, 03 Jun 2019 01:47:18: 14000000 INFO @ Mon, 03 Jun 2019 01:47:18: 13000000 INFO @ Mon, 03 Jun 2019 01:47:19: 14000000 INFO @ Mon, 03 Jun 2019 01:47:26: 15000000 INFO @ Mon, 03 Jun 2019 01:47:27: 14000000 INFO @ Mon, 03 Jun 2019 01:47:28: 15000000 INFO @ Mon, 03 Jun 2019 01:47:34: 16000000 INFO @ Mon, 03 Jun 2019 01:47:35: 15000000 INFO @ Mon, 03 Jun 2019 01:47:36: 16000000 INFO @ Mon, 03 Jun 2019 01:47:42: 17000000 INFO @ Mon, 03 Jun 2019 01:47:44: 16000000 INFO @ Mon, 03 Jun 2019 01:47:44: 17000000 INFO @ Mon, 03 Jun 2019 01:47:51: 18000000 INFO @ Mon, 03 Jun 2019 01:47:54: 17000000 INFO @ Mon, 03 Jun 2019 01:47:54: 18000000 INFO @ Mon, 03 Jun 2019 01:48:02: 19000000 INFO @ Mon, 03 Jun 2019 01:48:03: #1 tag size is determined as 40 bps INFO @ Mon, 03 Jun 2019 01:48:03: #1 tag size = 40 INFO @ Mon, 03 Jun 2019 01:48:03: #1 total tags in treatment: 19021610 INFO @ Mon, 03 Jun 2019 01:48:03: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 01:48:03: #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 01:48:03: #1 tags after filtering in treatment: 19021610 INFO @ Mon, 03 Jun 2019 01:48:03: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 01:48:03: #1 finished! INFO @ Mon, 03 Jun 2019 01:48:03: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 01:48:03: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 01:48:04: 19000000 INFO @ Mon, 03 Jun 2019 01:48:04: 18000000 INFO @ Mon, 03 Jun 2019 01:48:05: #1 tag size is determined as 40 bps INFO @ Mon, 03 Jun 2019 01:48:05: #1 tag size = 40 INFO @ Mon, 03 Jun 2019 01:48:05: #1 total tags in treatment: 19021610 INFO @ Mon, 03 Jun 2019 01:48:05: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 01:48:05: #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 01:48:05: #2 number of paired peaks: 2 WARNING @ Mon, 03 Jun 2019 01:48:05: Too few paired peaks (2) 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 01:48:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.05_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/SRX104980/SRX104980.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 01:48:05: #1 tags after filtering in treatment: 19021610 INFO @ Mon, 03 Jun 2019 01:48:05: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 01:48:05: #1 finished! INFO @ Mon, 03 Jun 2019 01:48:05: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 01:48:05: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 01:48:07: #2 number of paired peaks: 2 WARNING @ Mon, 03 Jun 2019 01:48:07: Too few paired peaks (2) 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 01:48:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.10_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/SRX104980/SRX104980.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 01:48:12: 19000000 INFO @ Mon, 03 Jun 2019 01:48:13: #1 tag size is determined as 40 bps INFO @ Mon, 03 Jun 2019 01:48:13: #1 tag size = 40 INFO @ Mon, 03 Jun 2019 01:48:13: #1 total tags in treatment: 19021610 INFO @ Mon, 03 Jun 2019 01:48:13: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 01:48:13: #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 01:48:13: #1 tags after filtering in treatment: 19021610 INFO @ Mon, 03 Jun 2019 01:48:13: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 01:48:13: #1 finished! INFO @ Mon, 03 Jun 2019 01:48:13: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 01:48:13: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 01:48:15: #2 number of paired peaks: 2 WARNING @ Mon, 03 Jun 2019 01:48:15: Too few paired peaks (2) 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 01:48:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.20_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/SRX104980/SRX104980.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104980/SRX104980.20_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。