Job ID = 1304567 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T11:53:54 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 ) 2019-06-03T11:53:54 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 ) 2019-06-03T11:53:54 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 : 18,534,845 reads read : 18,534,845 reads written : 18,534,845 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: 00:04:44 18534845 reads; of these: 18534845 (100.00%) were unpaired; of these: 677191 (3.65%) aligned 0 times 15525628 (83.76%) aligned exactly 1 time 2332026 (12.58%) aligned >1 times 96.35% overall alignment rate Time searching: 00:04:44 Overall time: 00:04:44 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] 3765118 / 17857654 = 0.2108 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 21:08:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.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 21:08:12: #1 read tag files... INFO @ Mon, 03 Jun 2019 21:08:12: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 21:08:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.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 21:08:12: #1 read tag files... INFO @ Mon, 03 Jun 2019 21:08:12: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 21:08:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.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 21:08:12: #1 read tag files... INFO @ Mon, 03 Jun 2019 21:08:12: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 21:08:19: 1000000 INFO @ Mon, 03 Jun 2019 21:08:20: 1000000 INFO @ Mon, 03 Jun 2019 21:08:22: 1000000 INFO @ Mon, 03 Jun 2019 21:08:27: 2000000 INFO @ Mon, 03 Jun 2019 21:08:28: 2000000 INFO @ Mon, 03 Jun 2019 21:08:31: 2000000 INFO @ Mon, 03 Jun 2019 21:08:34: 3000000 INFO @ Mon, 03 Jun 2019 21:08:35: 3000000 INFO @ Mon, 03 Jun 2019 21:08:41: 3000000 INFO @ Mon, 03 Jun 2019 21:08:41: 4000000 INFO @ Mon, 03 Jun 2019 21:08:43: 4000000 INFO @ Mon, 03 Jun 2019 21:08:48: 5000000 INFO @ Mon, 03 Jun 2019 21:08:51: 5000000 INFO @ Mon, 03 Jun 2019 21:08:51: 4000000 INFO @ Mon, 03 Jun 2019 21:08:55: 6000000 INFO @ Mon, 03 Jun 2019 21:08:58: 6000000 INFO @ Mon, 03 Jun 2019 21:09:00: 5000000 INFO @ Mon, 03 Jun 2019 21:09:02: 7000000 INFO @ Mon, 03 Jun 2019 21:09:06: 7000000 INFO @ Mon, 03 Jun 2019 21:09:09: 6000000 INFO @ Mon, 03 Jun 2019 21:09:09: 8000000 INFO @ Mon, 03 Jun 2019 21:09:13: 8000000 INFO @ Mon, 03 Jun 2019 21:09:16: 9000000 INFO @ Mon, 03 Jun 2019 21:09:19: 7000000 INFO @ Mon, 03 Jun 2019 21:09:21: 9000000 INFO @ Mon, 03 Jun 2019 21:09:23: 10000000 INFO @ Mon, 03 Jun 2019 21:09:28: 8000000 INFO @ Mon, 03 Jun 2019 21:09:28: 10000000 INFO @ Mon, 03 Jun 2019 21:09:30: 11000000 INFO @ Mon, 03 Jun 2019 21:09:36: 11000000 INFO @ Mon, 03 Jun 2019 21:09:37: 12000000 INFO @ Mon, 03 Jun 2019 21:09:38: 9000000 INFO @ Mon, 03 Jun 2019 21:09:43: 12000000 INFO @ Mon, 03 Jun 2019 21:09:44: 13000000 INFO @ Mon, 03 Jun 2019 21:09:47: 10000000 INFO @ Mon, 03 Jun 2019 21:09:51: 13000000 INFO @ Mon, 03 Jun 2019 21:09:51: 14000000 INFO @ Mon, 03 Jun 2019 21:09:52: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 21:09:52: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 21:09:52: #1 total tags in treatment: 14092536 INFO @ Mon, 03 Jun 2019 21:09:52: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 21:09:52: #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 21:09:52: #1 tags after filtering in treatment: 14092536 INFO @ Mon, 03 Jun 2019 21:09:52: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 21:09:52: #1 finished! INFO @ Mon, 03 Jun 2019 21:09:52: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 21:09:52: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 21:09:53: #2 number of paired peaks: 44 WARNING @ Mon, 03 Jun 2019 21:09:53: Too few paired peaks (44) 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 21:09:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.10_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/SRX495192/SRX495192.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 21:09:56: 11000000 INFO @ Mon, 03 Jun 2019 21:09:58: 14000000 INFO @ Mon, 03 Jun 2019 21:09:59: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 21:09:59: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 21:09:59: #1 total tags in treatment: 14092536 INFO @ Mon, 03 Jun 2019 21:09:59: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 21:09:59: #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 21:10:00: #1 tags after filtering in treatment: 14092536 INFO @ Mon, 03 Jun 2019 21:10:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 21:10:00: #1 finished! INFO @ Mon, 03 Jun 2019 21:10:00: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 21:10:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 21:10:01: #2 number of paired peaks: 44 WARNING @ Mon, 03 Jun 2019 21:10:01: Too few paired peaks (44) 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 21:10:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.20_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/SRX495192/SRX495192.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 21:10:04: 12000000 INFO @ Mon, 03 Jun 2019 21:10:13: 13000000 INFO @ Mon, 03 Jun 2019 21:10:21: 14000000 INFO @ Mon, 03 Jun 2019 21:10:22: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 21:10:22: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 21:10:22: #1 total tags in treatment: 14092536 INFO @ Mon, 03 Jun 2019 21:10:22: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 21:10:22: #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 21:10:22: #1 tags after filtering in treatment: 14092536 INFO @ Mon, 03 Jun 2019 21:10:22: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 21:10:22: #1 finished! INFO @ Mon, 03 Jun 2019 21:10:22: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 21:10:22: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 21:10:23: #2 number of paired peaks: 44 WARNING @ Mon, 03 Jun 2019 21:10:23: Too few paired peaks (44) 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 21:10:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.05_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/SRX495192/SRX495192.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495192/SRX495192.05_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。