Job ID = 2010759 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T15:30:22 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 ) 2019-07-05T15:30:22 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 ) 2019-07-05T15:33:23 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 ) 2019-07-05T15:34:53 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 ) 2019-07-05T15:46:38 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 : 64,099,779 reads read : 64,099,779 reads written : 64,099,779 rm: cannot remove ‘[DSE]RR*’: 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: 00:10:55 64099779 reads; of these: 64099779 (100.00%) were unpaired; of these: 4212870 (6.57%) aligned 0 times 52340232 (81.65%) aligned exactly 1 time 7546677 (11.77%) aligned >1 times 93.43% overall alignment rate Time searching: 00:10:55 Overall time: 00:10:55 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 28 files... [bam_rmdupse_core] 44326161 / 59886909 = 0.7402 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 @ Sat, 06 Jul 2019 01:20:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 06 Jul 2019 01:20:10: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:20:10: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:20:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 06 Jul 2019 01:20:11: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:20:11: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:20:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 06 Jul 2019 01:20:12: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:20:12: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:20:18: 1000000 INFO @ Sat, 06 Jul 2019 01:20:19: 1000000 INFO @ Sat, 06 Jul 2019 01:20:19: 1000000 INFO @ Sat, 06 Jul 2019 01:20:25: 2000000 INFO @ Sat, 06 Jul 2019 01:20:26: 2000000 INFO @ Sat, 06 Jul 2019 01:20:27: 2000000 INFO @ Sat, 06 Jul 2019 01:20:31: 3000000 INFO @ Sat, 06 Jul 2019 01:20:32: 3000000 INFO @ Sat, 06 Jul 2019 01:20:34: 3000000 INFO @ Sat, 06 Jul 2019 01:20:37: 4000000 INFO @ Sat, 06 Jul 2019 01:20:38: 4000000 INFO @ Sat, 06 Jul 2019 01:20:42: 4000000 INFO @ Sat, 06 Jul 2019 01:20:43: 5000000 INFO @ Sat, 06 Jul 2019 01:20:44: 5000000 INFO @ Sat, 06 Jul 2019 01:20:49: 5000000 INFO @ Sat, 06 Jul 2019 01:20:49: 6000000 INFO @ Sat, 06 Jul 2019 01:20:51: 6000000 INFO @ Sat, 06 Jul 2019 01:20:56: 7000000 INFO @ Sat, 06 Jul 2019 01:20:56: 6000000 INFO @ Sat, 06 Jul 2019 01:20:57: 7000000 INFO @ Sat, 06 Jul 2019 01:21:02: 8000000 INFO @ Sat, 06 Jul 2019 01:21:03: 8000000 INFO @ Sat, 06 Jul 2019 01:21:04: 7000000 INFO @ Sat, 06 Jul 2019 01:21:08: 9000000 INFO @ Sat, 06 Jul 2019 01:21:09: 9000000 INFO @ Sat, 06 Jul 2019 01:21:12: 8000000 INFO @ Sat, 06 Jul 2019 01:21:14: 10000000 INFO @ Sat, 06 Jul 2019 01:21:16: 10000000 INFO @ Sat, 06 Jul 2019 01:21:19: 9000000 INFO @ Sat, 06 Jul 2019 01:21:21: 11000000 INFO @ Sat, 06 Jul 2019 01:21:22: 11000000 INFO @ Sat, 06 Jul 2019 01:21:26: 10000000 INFO @ Sat, 06 Jul 2019 01:21:27: 12000000 INFO @ Sat, 06 Jul 2019 01:21:28: 12000000 INFO @ Sat, 06 Jul 2019 01:21:33: 13000000 INFO @ Sat, 06 Jul 2019 01:21:34: 11000000 INFO @ Sat, 06 Jul 2019 01:21:34: 13000000 INFO @ Sat, 06 Jul 2019 01:21:39: 14000000 INFO @ Sat, 06 Jul 2019 01:21:41: 14000000 INFO @ Sat, 06 Jul 2019 01:21:41: 12000000 INFO @ Sat, 06 Jul 2019 01:21:45: 15000000 INFO @ Sat, 06 Jul 2019 01:21:47: 15000000 INFO @ Sat, 06 Jul 2019 01:21:49: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 01:21:49: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 01:21:49: #1 total tags in treatment: 15560748 INFO @ Sat, 06 Jul 2019 01:21:49: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:21:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 01:21:49: 13000000 INFO @ Sat, 06 Jul 2019 01:21:49: #1 tags after filtering in treatment: 15560748 INFO @ Sat, 06 Jul 2019 01:21:49: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:21:49: #1 finished! INFO @ Sat, 06 Jul 2019 01:21:49: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:21:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:21:50: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:21:50: 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 @ Sat, 06 Jul 2019 01:21:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.10_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/sacCer3/SRX387217/SRX387217.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:21:51: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 01:21:51: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 01:21:51: #1 total tags in treatment: 15560748 INFO @ Sat, 06 Jul 2019 01:21:51: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:21:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 01:21:51: #1 tags after filtering in treatment: 15560748 INFO @ Sat, 06 Jul 2019 01:21:51: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:21:51: #1 finished! INFO @ Sat, 06 Jul 2019 01:21:51: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:21:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:21:52: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:21:52: 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 @ Sat, 06 Jul 2019 01:21:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.20_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/sacCer3/SRX387217/SRX387217.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:21:56: 14000000 INFO @ Sat, 06 Jul 2019 01:22:04: 15000000 INFO @ Sat, 06 Jul 2019 01:22:08: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 01:22:08: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 01:22:08: #1 total tags in treatment: 15560748 INFO @ Sat, 06 Jul 2019 01:22:08: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:22:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 01:22:08: #1 tags after filtering in treatment: 15560748 INFO @ Sat, 06 Jul 2019 01:22:08: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:22:08: #1 finished! INFO @ Sat, 06 Jul 2019 01:22:08: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:22:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:22:10: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:22:10: 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 @ Sat, 06 Jul 2019 01:22:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.05_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/sacCer3/SRX387217/SRX387217.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX387217/SRX387217.05_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。