Job ID = 1304982 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T12:02:40 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 ) 2019-06-03T12:03:23 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 ) 2019-06-03T12:03:23 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 : 32,193,540 reads read : 32,193,540 reads written : 32,193,540 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: 00:09:23 32193540 reads; of these: 32193540 (100.00%) were unpaired; of these: 1559844 (4.85%) aligned 0 times 27474440 (85.34%) aligned exactly 1 time 3159256 (9.81%) aligned >1 times 95.15% overall alignment rate Time searching: 00:09:23 Overall time: 00:09:23 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] 7695976 / 30633696 = 0.2512 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 21:36:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.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 21:36:42: #1 read tag files... INFO @ Mon, 03 Jun 2019 21:36:42: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 21:36:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.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 21:36:43: #1 read tag files... INFO @ Mon, 03 Jun 2019 21:36:43: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 21:36:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.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 21:36:43: #1 read tag files... INFO @ Mon, 03 Jun 2019 21:36:43: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 21:36:55: 1000000 INFO @ Mon, 03 Jun 2019 21:36:56: 1000000 INFO @ Mon, 03 Jun 2019 21:36:56: 1000000 INFO @ Mon, 03 Jun 2019 21:37:04: 2000000 INFO @ Mon, 03 Jun 2019 21:37:07: 2000000 INFO @ Mon, 03 Jun 2019 21:37:08: 2000000 INFO @ Mon, 03 Jun 2019 21:37:13: 3000000 INFO @ Mon, 03 Jun 2019 21:37:16: 3000000 INFO @ Mon, 03 Jun 2019 21:37:19: 3000000 INFO @ Mon, 03 Jun 2019 21:37:21: 4000000 INFO @ Mon, 03 Jun 2019 21:37:26: 4000000 INFO @ Mon, 03 Jun 2019 21:37:30: 5000000 INFO @ Mon, 03 Jun 2019 21:37:31: 4000000 INFO @ Mon, 03 Jun 2019 21:37:36: 5000000 INFO @ Mon, 03 Jun 2019 21:37:38: 6000000 INFO @ Mon, 03 Jun 2019 21:37:42: 5000000 INFO @ Mon, 03 Jun 2019 21:37:46: 7000000 INFO @ Mon, 03 Jun 2019 21:37:46: 6000000 INFO @ Mon, 03 Jun 2019 21:37:53: 6000000 INFO @ Mon, 03 Jun 2019 21:37:55: 8000000 INFO @ Mon, 03 Jun 2019 21:37:57: 7000000 INFO @ Mon, 03 Jun 2019 21:38:03: 9000000 INFO @ Mon, 03 Jun 2019 21:38:05: 7000000 INFO @ Mon, 03 Jun 2019 21:38:07: 8000000 INFO @ Mon, 03 Jun 2019 21:38:11: 10000000 INFO @ Mon, 03 Jun 2019 21:38:16: 8000000 INFO @ Mon, 03 Jun 2019 21:38:18: 9000000 INFO @ Mon, 03 Jun 2019 21:38:20: 11000000 INFO @ Mon, 03 Jun 2019 21:38:27: 9000000 INFO @ Mon, 03 Jun 2019 21:38:28: 12000000 INFO @ Mon, 03 Jun 2019 21:38:28: 10000000 INFO @ Mon, 03 Jun 2019 21:38:36: 13000000 INFO @ Mon, 03 Jun 2019 21:38:38: 11000000 INFO @ Mon, 03 Jun 2019 21:38:39: 10000000 INFO @ Mon, 03 Jun 2019 21:38:45: 14000000 INFO @ Mon, 03 Jun 2019 21:38:48: 12000000 INFO @ Mon, 03 Jun 2019 21:38:50: 11000000 INFO @ Mon, 03 Jun 2019 21:38:53: 15000000 INFO @ Mon, 03 Jun 2019 21:38:58: 13000000 INFO @ Mon, 03 Jun 2019 21:39:01: 12000000 INFO @ Mon, 03 Jun 2019 21:39:01: 16000000 INFO @ Mon, 03 Jun 2019 21:39:08: 14000000 INFO @ Mon, 03 Jun 2019 21:39:09: 17000000 INFO @ Mon, 03 Jun 2019 21:39:12: 13000000 INFO @ Mon, 03 Jun 2019 21:39:18: 18000000 INFO @ Mon, 03 Jun 2019 21:39:19: 15000000 INFO @ Mon, 03 Jun 2019 21:39:23: 14000000 INFO @ Mon, 03 Jun 2019 21:39:27: 19000000 INFO @ Mon, 03 Jun 2019 21:39:30: 16000000 INFO @ Mon, 03 Jun 2019 21:39:35: 15000000 INFO @ Mon, 03 Jun 2019 21:39:36: 20000000 INFO @ Mon, 03 Jun 2019 21:39:40: 17000000 INFO @ Mon, 03 Jun 2019 21:39:45: 21000000 INFO @ Mon, 03 Jun 2019 21:39:46: 16000000 INFO @ Mon, 03 Jun 2019 21:39:50: 18000000 INFO @ Mon, 03 Jun 2019 21:39:54: 22000000 INFO @ Mon, 03 Jun 2019 21:39:57: 17000000 INFO @ Mon, 03 Jun 2019 21:40:00: 19000000 INFO @ Mon, 03 Jun 2019 21:40:02: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 21:40:02: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 21:40:02: #1 total tags in treatment: 22937720 INFO @ Mon, 03 Jun 2019 21:40:02: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 21:40:02: #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 21:40:02: #1 tags after filtering in treatment: 22937720 INFO @ Mon, 03 Jun 2019 21:40:02: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 21:40:02: #1 finished! INFO @ Mon, 03 Jun 2019 21:40:02: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 21:40:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 21:40:04: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 21:40:04: 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 21:40:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.05_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/SRX495259/SRX495259.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 21:40:08: 18000000 INFO @ Mon, 03 Jun 2019 21:40:10: 20000000 INFO @ Mon, 03 Jun 2019 21:40:19: 19000000 INFO @ Mon, 03 Jun 2019 21:40:20: 21000000 INFO @ Mon, 03 Jun 2019 21:40:30: 20000000 INFO @ Mon, 03 Jun 2019 21:40:31: 22000000 INFO @ Mon, 03 Jun 2019 21:40:40: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 21:40:40: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 21:40:40: #1 total tags in treatment: 22937720 INFO @ Mon, 03 Jun 2019 21:40:40: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 21:40:40: #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 21:40:41: #1 tags after filtering in treatment: 22937720 INFO @ Mon, 03 Jun 2019 21:40:41: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 21:40:41: #1 finished! INFO @ Mon, 03 Jun 2019 21:40:41: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 21:40:41: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 21:40:41: 21000000 INFO @ Mon, 03 Jun 2019 21:40:43: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 21:40:43: 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 21:40:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.10_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/SRX495259/SRX495259.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 21:40:52: 22000000 INFO @ Mon, 03 Jun 2019 21:41:01: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 21:41:01: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 21:41:01: #1 total tags in treatment: 22937720 INFO @ Mon, 03 Jun 2019 21:41:01: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 21:41:01: #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 21:41:02: #1 tags after filtering in treatment: 22937720 INFO @ Mon, 03 Jun 2019 21:41:02: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 21:41:02: #1 finished! INFO @ Mon, 03 Jun 2019 21:41:02: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 21:41:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 21:41:04: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 21:41:04: 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 21:41:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.20_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/SRX495259/SRX495259.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495259/SRX495259.20_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。