Job ID = 1301755 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T10:57:21 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 : 27,064,284 reads read : 27,064,284 reads written : 27,064,284 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: 00:04:58 27064284 reads; of these: 27064284 (100.00%) were unpaired; of these: 5047574 (18.65%) aligned 0 times 19764407 (73.03%) aligned exactly 1 time 2252303 (8.32%) aligned >1 times 81.35% overall alignment rate Time searching: 00:04:58 Overall time: 00:04:58 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] 5695009 / 22016710 = 0.2587 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 20:15:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.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 20:15:06: #1 read tag files... INFO @ Mon, 03 Jun 2019 20:15:06: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 20:15:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.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 20:15:06: #1 read tag files... INFO @ Mon, 03 Jun 2019 20:15:06: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 20:15:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.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 20:15:06: #1 read tag files... INFO @ Mon, 03 Jun 2019 20:15:06: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 20:15:15: 1000000 INFO @ Mon, 03 Jun 2019 20:15:15: 1000000 INFO @ Mon, 03 Jun 2019 20:15:16: 1000000 INFO @ Mon, 03 Jun 2019 20:15:22: 2000000 INFO @ Mon, 03 Jun 2019 20:15:25: 2000000 INFO @ Mon, 03 Jun 2019 20:15:26: 2000000 INFO @ Mon, 03 Jun 2019 20:15:29: 3000000 INFO @ Mon, 03 Jun 2019 20:15:35: 3000000 INFO @ Mon, 03 Jun 2019 20:15:36: 3000000 INFO @ Mon, 03 Jun 2019 20:15:36: 4000000 INFO @ Mon, 03 Jun 2019 20:15:44: 5000000 INFO @ Mon, 03 Jun 2019 20:15:45: 4000000 INFO @ Mon, 03 Jun 2019 20:15:46: 4000000 INFO @ Mon, 03 Jun 2019 20:15:51: 6000000 INFO @ Mon, 03 Jun 2019 20:15:55: 5000000 INFO @ Mon, 03 Jun 2019 20:15:56: 5000000 INFO @ Mon, 03 Jun 2019 20:15:58: 7000000 INFO @ Mon, 03 Jun 2019 20:16:05: 6000000 INFO @ Mon, 03 Jun 2019 20:16:05: 8000000 INFO @ Mon, 03 Jun 2019 20:16:06: 6000000 INFO @ Mon, 03 Jun 2019 20:16:12: 9000000 INFO @ Mon, 03 Jun 2019 20:16:14: 7000000 INFO @ Mon, 03 Jun 2019 20:16:16: 7000000 INFO @ Mon, 03 Jun 2019 20:16:19: 10000000 INFO @ Mon, 03 Jun 2019 20:16:24: 8000000 INFO @ Mon, 03 Jun 2019 20:16:26: 8000000 INFO @ Mon, 03 Jun 2019 20:16:27: 11000000 INFO @ Mon, 03 Jun 2019 20:16:34: 12000000 INFO @ Mon, 03 Jun 2019 20:16:34: 9000000 INFO @ Mon, 03 Jun 2019 20:16:36: 9000000 INFO @ Mon, 03 Jun 2019 20:16:41: 13000000 INFO @ Mon, 03 Jun 2019 20:16:44: 10000000 INFO @ Mon, 03 Jun 2019 20:16:46: 10000000 INFO @ Mon, 03 Jun 2019 20:16:49: 14000000 INFO @ Mon, 03 Jun 2019 20:16:54: 11000000 INFO @ Mon, 03 Jun 2019 20:16:56: 11000000 INFO @ Mon, 03 Jun 2019 20:16:56: 15000000 INFO @ Mon, 03 Jun 2019 20:17:04: 16000000 INFO @ Mon, 03 Jun 2019 20:17:04: 12000000 INFO @ Mon, 03 Jun 2019 20:17:06: #1 tag size is determined as 40 bps INFO @ Mon, 03 Jun 2019 20:17:06: #1 tag size = 40 INFO @ Mon, 03 Jun 2019 20:17:06: #1 total tags in treatment: 16321701 INFO @ Mon, 03 Jun 2019 20:17:06: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 20:17:06: #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 20:17:06: 12000000 INFO @ Mon, 03 Jun 2019 20:17:06: #1 tags after filtering in treatment: 16321701 INFO @ Mon, 03 Jun 2019 20:17:06: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 20:17:06: #1 finished! INFO @ Mon, 03 Jun 2019 20:17:06: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 20:17:06: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 20:17:08: #2 number of paired peaks: 55 WARNING @ Mon, 03 Jun 2019 20:17:08: Too few paired peaks (55) 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 20:17:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.05_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/SRX490731/SRX490731.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 20:17:15: 13000000 INFO @ Mon, 03 Jun 2019 20:17:17: 13000000 INFO @ Mon, 03 Jun 2019 20:17:26: 14000000 INFO @ Mon, 03 Jun 2019 20:17:28: 14000000 INFO @ Mon, 03 Jun 2019 20:17:37: 15000000 INFO @ Mon, 03 Jun 2019 20:17:38: 15000000 INFO @ Mon, 03 Jun 2019 20:17:47: 16000000 INFO @ Mon, 03 Jun 2019 20:17:48: 16000000 INFO @ Mon, 03 Jun 2019 20:17:50: #1 tag size is determined as 40 bps INFO @ Mon, 03 Jun 2019 20:17:50: #1 tag size = 40 INFO @ Mon, 03 Jun 2019 20:17:50: #1 total tags in treatment: 16321701 INFO @ Mon, 03 Jun 2019 20:17:50: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 20:17:50: #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 20:17:50: #1 tags after filtering in treatment: 16321701 INFO @ Mon, 03 Jun 2019 20:17:50: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 20:17:50: #1 finished! INFO @ Mon, 03 Jun 2019 20:17:50: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 20:17:50: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 20:17:51: #1 tag size is determined as 40 bps INFO @ Mon, 03 Jun 2019 20:17:51: #1 tag size = 40 INFO @ Mon, 03 Jun 2019 20:17:51: #1 total tags in treatment: 16321701 INFO @ Mon, 03 Jun 2019 20:17:51: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 20:17:51: #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 20:17:52: #1 tags after filtering in treatment: 16321701 INFO @ Mon, 03 Jun 2019 20:17:52: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 20:17:52: #1 finished! INFO @ Mon, 03 Jun 2019 20:17:52: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 20:17:52: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 20:17:52: #2 number of paired peaks: 55 WARNING @ Mon, 03 Jun 2019 20:17:52: Too few paired peaks (55) 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 20:17:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.20_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/SRX490731/SRX490731.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 20:17:53: #2 number of paired peaks: 55 WARNING @ Mon, 03 Jun 2019 20:17:53: Too few paired peaks (55) 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 20:17:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.10_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/SRX490731/SRX490731.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX490731/SRX490731.10_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。