Job ID = 1295327 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T04:09:55 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 ) 2019-06-03T04:24:11 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 ) 2019-06-03T04:24:11 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 ) 2019-06-03T04:24:11 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 : 32,260,958 reads read : 32,260,958 reads written : 32,260,958 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: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:08:40 32260958 reads; of these: 32260958 (100.00%) were unpaired; of these: 1496379 (4.64%) aligned 0 times 27554832 (85.41%) aligned exactly 1 time 3209747 (9.95%) aligned >1 times 95.36% overall alignment rate Time searching: 00:08:41 Overall time: 00:08:41 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 16 files... [bam_rmdupse_core] 8130826 / 30764579 = 0.2643 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 13:43:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.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 13:43:00: #1 read tag files... INFO @ Mon, 03 Jun 2019 13:43:00: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 13:43:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.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 13:43:00: #1 read tag files... INFO @ Mon, 03 Jun 2019 13:43:00: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 13:43:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.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 13:43:00: #1 read tag files... INFO @ Mon, 03 Jun 2019 13:43:00: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 13:43:11: 1000000 INFO @ Mon, 03 Jun 2019 13:43:11: 1000000 INFO @ Mon, 03 Jun 2019 13:43:11: 1000000 INFO @ Mon, 03 Jun 2019 13:43:21: 2000000 INFO @ Mon, 03 Jun 2019 13:43:21: 2000000 INFO @ Mon, 03 Jun 2019 13:43:21: 2000000 INFO @ Mon, 03 Jun 2019 13:43:31: 3000000 INFO @ Mon, 03 Jun 2019 13:43:32: 3000000 INFO @ Mon, 03 Jun 2019 13:43:32: 3000000 INFO @ Mon, 03 Jun 2019 13:43:41: 4000000 INFO @ Mon, 03 Jun 2019 13:43:42: 4000000 INFO @ Mon, 03 Jun 2019 13:43:42: 4000000 INFO @ Mon, 03 Jun 2019 13:43:51: 5000000 INFO @ Mon, 03 Jun 2019 13:43:53: 5000000 INFO @ Mon, 03 Jun 2019 13:43:53: 5000000 INFO @ Mon, 03 Jun 2019 13:44:02: 6000000 INFO @ Mon, 03 Jun 2019 13:44:03: 6000000 INFO @ Mon, 03 Jun 2019 13:44:04: 6000000 INFO @ Mon, 03 Jun 2019 13:44:12: 7000000 INFO @ Mon, 03 Jun 2019 13:44:14: 7000000 INFO @ Mon, 03 Jun 2019 13:44:15: 7000000 INFO @ Mon, 03 Jun 2019 13:44:24: 8000000 INFO @ Mon, 03 Jun 2019 13:44:25: 8000000 INFO @ Mon, 03 Jun 2019 13:44:25: 8000000 INFO @ Mon, 03 Jun 2019 13:44:34: 9000000 INFO @ Mon, 03 Jun 2019 13:44:35: 9000000 INFO @ Mon, 03 Jun 2019 13:44:36: 9000000 INFO @ Mon, 03 Jun 2019 13:44:44: 10000000 INFO @ Mon, 03 Jun 2019 13:44:46: 10000000 INFO @ Mon, 03 Jun 2019 13:44:47: 10000000 INFO @ Mon, 03 Jun 2019 13:44:54: 11000000 INFO @ Mon, 03 Jun 2019 13:44:57: 11000000 INFO @ Mon, 03 Jun 2019 13:44:58: 11000000 INFO @ Mon, 03 Jun 2019 13:45:05: 12000000 INFO @ Mon, 03 Jun 2019 13:45:08: 12000000 INFO @ Mon, 03 Jun 2019 13:45:09: 12000000 INFO @ Mon, 03 Jun 2019 13:45:15: 13000000 INFO @ Mon, 03 Jun 2019 13:45:18: 13000000 INFO @ Mon, 03 Jun 2019 13:45:19: 13000000 INFO @ Mon, 03 Jun 2019 13:45:26: 14000000 INFO @ Mon, 03 Jun 2019 13:45:29: 14000000 INFO @ Mon, 03 Jun 2019 13:45:30: 14000000 INFO @ Mon, 03 Jun 2019 13:45:37: 15000000 INFO @ Mon, 03 Jun 2019 13:45:40: 15000000 INFO @ Mon, 03 Jun 2019 13:45:42: 15000000 INFO @ Mon, 03 Jun 2019 13:45:48: 16000000 INFO @ Mon, 03 Jun 2019 13:45:50: 16000000 INFO @ Mon, 03 Jun 2019 13:45:53: 16000000 INFO @ Mon, 03 Jun 2019 13:45:58: 17000000 INFO @ Mon, 03 Jun 2019 13:46:01: 17000000 INFO @ Mon, 03 Jun 2019 13:46:03: 17000000 INFO @ Mon, 03 Jun 2019 13:46:09: 18000000 INFO @ Mon, 03 Jun 2019 13:46:12: 18000000 INFO @ Mon, 03 Jun 2019 13:46:14: 18000000 INFO @ Mon, 03 Jun 2019 13:46:20: 19000000 INFO @ Mon, 03 Jun 2019 13:46:23: 19000000 INFO @ Mon, 03 Jun 2019 13:46:26: 19000000 INFO @ Mon, 03 Jun 2019 13:46:31: 20000000 INFO @ Mon, 03 Jun 2019 13:46:34: 20000000 INFO @ Mon, 03 Jun 2019 13:46:37: 20000000 INFO @ Mon, 03 Jun 2019 13:46:42: 21000000 INFO @ Mon, 03 Jun 2019 13:46:45: 21000000 INFO @ Mon, 03 Jun 2019 13:46:49: 21000000 INFO @ Mon, 03 Jun 2019 13:46:52: 22000000 INFO @ Mon, 03 Jun 2019 13:46:55: 22000000 INFO @ Mon, 03 Jun 2019 13:46:59: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 13:46:59: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 13:46:59: #1 total tags in treatment: 22633753 INFO @ Mon, 03 Jun 2019 13:46:59: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 13:46:59: #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 13:46:59: 22000000 INFO @ Mon, 03 Jun 2019 13:46:59: #1 tags after filtering in treatment: 22633753 INFO @ Mon, 03 Jun 2019 13:46:59: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 13:46:59: #1 finished! INFO @ Mon, 03 Jun 2019 13:46:59: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 13:46:59: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 13:47:01: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 13:47:01: 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 13:47:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.05_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/SRX335491/SRX335491.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 13:47:02: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 13:47:02: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 13:47:02: #1 total tags in treatment: 22633753 INFO @ Mon, 03 Jun 2019 13:47:02: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 13:47:02: #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 13:47:02: #1 tags after filtering in treatment: 22633753 INFO @ Mon, 03 Jun 2019 13:47:02: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 13:47:02: #1 finished! INFO @ Mon, 03 Jun 2019 13:47:02: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 13:47:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 13:47:04: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 13:47:04: 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 13:47:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.20_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/SRX335491/SRX335491.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 13:47:06: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 13:47:06: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 13:47:06: #1 total tags in treatment: 22633753 INFO @ Mon, 03 Jun 2019 13:47:06: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 13:47:06: #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 13:47:06: #1 tags after filtering in treatment: 22633753 INFO @ Mon, 03 Jun 2019 13:47:06: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 13:47:06: #1 finished! INFO @ Mon, 03 Jun 2019 13:47:06: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 13:47:06: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 13:47:08: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 13:47:08: 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 13:47:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.10_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/SRX335491/SRX335491.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335491/SRX335491.10_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。