Job ID = 1294612 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T00:14:17 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 ) 2019-06-03T00:14:17 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 ) 2019-06-03T00:14:17 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 : 21,014,950 reads read : 21,014,950 reads written : 21,014,950 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: 00:08:00 21014950 reads; of these: 21014950 (100.00%) were unpaired; of these: 1185202 (5.64%) aligned 0 times 14968692 (71.23%) aligned exactly 1 time 4861056 (23.13%) aligned >1 times 94.36% overall alignment rate Time searching: 00:08:00 Overall time: 00:08:00 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 12 files... [bam_rmdupse_core] 2683156 / 19829748 = 0.1353 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 09:38:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.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 09:38:03: #1 read tag files... INFO @ Mon, 03 Jun 2019 09:38:03: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 09:38:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.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 09:38:03: #1 read tag files... INFO @ Mon, 03 Jun 2019 09:38:03: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 09:38:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.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 09:38:03: #1 read tag files... INFO @ Mon, 03 Jun 2019 09:38:03: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 09:38:12: 1000000 INFO @ Mon, 03 Jun 2019 09:38:13: 1000000 INFO @ Mon, 03 Jun 2019 09:38:15: 1000000 INFO @ Mon, 03 Jun 2019 09:38:21: 2000000 INFO @ Mon, 03 Jun 2019 09:38:21: 2000000 INFO @ Mon, 03 Jun 2019 09:38:26: 2000000 INFO @ Mon, 03 Jun 2019 09:38:29: 3000000 INFO @ Mon, 03 Jun 2019 09:38:30: 3000000 INFO @ Mon, 03 Jun 2019 09:38:37: 3000000 INFO @ Mon, 03 Jun 2019 09:38:38: 4000000 INFO @ Mon, 03 Jun 2019 09:38:40: 4000000 INFO @ Mon, 03 Jun 2019 09:38:46: 5000000 INFO @ Mon, 03 Jun 2019 09:38:48: 4000000 INFO @ Mon, 03 Jun 2019 09:38:48: 5000000 INFO @ Mon, 03 Jun 2019 09:38:55: 6000000 INFO @ Mon, 03 Jun 2019 09:38:57: 6000000 INFO @ Mon, 03 Jun 2019 09:38:59: 5000000 INFO @ Mon, 03 Jun 2019 09:39:03: 7000000 INFO @ Mon, 03 Jun 2019 09:39:06: 7000000 INFO @ Mon, 03 Jun 2019 09:39:10: 6000000 INFO @ Mon, 03 Jun 2019 09:39:12: 8000000 INFO @ Mon, 03 Jun 2019 09:39:15: 8000000 INFO @ Mon, 03 Jun 2019 09:39:20: 9000000 INFO @ Mon, 03 Jun 2019 09:39:21: 7000000 INFO @ Mon, 03 Jun 2019 09:39:24: 9000000 INFO @ Mon, 03 Jun 2019 09:39:29: 10000000 INFO @ Mon, 03 Jun 2019 09:39:32: 8000000 INFO @ Mon, 03 Jun 2019 09:39:33: 10000000 INFO @ Mon, 03 Jun 2019 09:39:38: 11000000 INFO @ Mon, 03 Jun 2019 09:39:42: 11000000 INFO @ Mon, 03 Jun 2019 09:39:44: 9000000 INFO @ Mon, 03 Jun 2019 09:39:46: 12000000 INFO @ Mon, 03 Jun 2019 09:39:50: 12000000 INFO @ Mon, 03 Jun 2019 09:39:54: 13000000 INFO @ Mon, 03 Jun 2019 09:39:55: 10000000 INFO @ Mon, 03 Jun 2019 09:39:59: 13000000 INFO @ Mon, 03 Jun 2019 09:40:03: 14000000 INFO @ Mon, 03 Jun 2019 09:40:05: 11000000 INFO @ Mon, 03 Jun 2019 09:40:08: 14000000 INFO @ Mon, 03 Jun 2019 09:40:12: 15000000 INFO @ Mon, 03 Jun 2019 09:40:16: 12000000 INFO @ Mon, 03 Jun 2019 09:40:17: 15000000 INFO @ Mon, 03 Jun 2019 09:40:20: 16000000 INFO @ Mon, 03 Jun 2019 09:40:26: 16000000 INFO @ Mon, 03 Jun 2019 09:40:27: 13000000 INFO @ Mon, 03 Jun 2019 09:40:29: 17000000 INFO @ Mon, 03 Jun 2019 09:40:30: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 09:40:30: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 09:40:30: #1 total tags in treatment: 17146592 INFO @ Mon, 03 Jun 2019 09:40:30: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 09:40:30: #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 09:40:30: #1 tags after filtering in treatment: 17146592 INFO @ Mon, 03 Jun 2019 09:40:30: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 09:40:30: #1 finished! INFO @ Mon, 03 Jun 2019 09:40:30: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 09:40:30: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 09:40:32: #2 number of paired peaks: 69 WARNING @ Mon, 03 Jun 2019 09:40:32: Too few paired peaks (69) 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 09:40:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.20_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/SRX287778/SRX287778.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 09:40:36: 17000000 INFO @ Mon, 03 Jun 2019 09:40:37: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 09:40:37: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 09:40:37: #1 total tags in treatment: 17146592 INFO @ Mon, 03 Jun 2019 09:40:37: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 09:40:37: #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 09:40:37: #1 tags after filtering in treatment: 17146592 INFO @ Mon, 03 Jun 2019 09:40:37: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 09:40:37: #1 finished! INFO @ Mon, 03 Jun 2019 09:40:37: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 09:40:37: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 09:40:39: #2 number of paired peaks: 69 WARNING @ Mon, 03 Jun 2019 09:40:39: Too few paired peaks (69) 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 09:40:39: Process for pairing-model is terminated! INFO @ Mon, 03 Jun 2019 09:40:39: 14000000 cut: /home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.10_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/SRX287778/SRX287778.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 09:40:50: 15000000 INFO @ Mon, 03 Jun 2019 09:41:00: 16000000 INFO @ Mon, 03 Jun 2019 09:41:12: 17000000 INFO @ Mon, 03 Jun 2019 09:41:13: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 09:41:13: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 09:41:13: #1 total tags in treatment: 17146592 INFO @ Mon, 03 Jun 2019 09:41:13: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 09:41:13: #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 09:41:14: #1 tags after filtering in treatment: 17146592 INFO @ Mon, 03 Jun 2019 09:41:14: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 09:41:14: #1 finished! INFO @ Mon, 03 Jun 2019 09:41:14: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 09:41:14: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 09:41:15: #2 number of paired peaks: 69 WARNING @ Mon, 03 Jun 2019 09:41:15: Too few paired peaks (69) 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 09:41:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.05_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/SRX287778/SRX287778.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287778/SRX287778.05_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。