Job ID = 2010187 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T12:39:29 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 ) 2019-07-05T12:41:50 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 : 7,332,710 reads read : 14,665,420 reads written : 7,332,710 reads 0-length : 7,332,710 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: 00:01:41 7332710 reads; of these: 7332710 (100.00%) were unpaired; of these: 630609 (8.60%) aligned 0 times 5855729 (79.86%) aligned exactly 1 time 846372 (11.54%) aligned >1 times 91.40% overall alignment rate Time searching: 00:01:41 Overall time: 00:01:41 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_rmdupse_core] 1621489 / 6702101 = 0.2419 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Fri, 05 Jul 2019 21:45:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.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 BedGraph に変換中... INFO @ Fri, 05 Jul 2019 21:45:54: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:45:54: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:45:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.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 @ Fri, 05 Jul 2019 21:45:54: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:45:54: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:45:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.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 @ Fri, 05 Jul 2019 21:45:55: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:45:55: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:46:03: 1000000 INFO @ Fri, 05 Jul 2019 21:46:04: 1000000 INFO @ Fri, 05 Jul 2019 21:46:05: 1000000 INFO @ Fri, 05 Jul 2019 21:46:12: 2000000 INFO @ Fri, 05 Jul 2019 21:46:13: 2000000 INFO @ Fri, 05 Jul 2019 21:46:14: 2000000 INFO @ Fri, 05 Jul 2019 21:46:21: 3000000 INFO @ Fri, 05 Jul 2019 21:46:22: 3000000 INFO @ Fri, 05 Jul 2019 21:46:23: 3000000 INFO @ Fri, 05 Jul 2019 21:46:30: 4000000 INFO @ Fri, 05 Jul 2019 21:46:31: 4000000 INFO @ Fri, 05 Jul 2019 21:46:32: 4000000 INFO @ Fri, 05 Jul 2019 21:46:40: 5000000 INFO @ Fri, 05 Jul 2019 21:46:40: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:46:40: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:46:40: #1 total tags in treatment: 5080612 INFO @ Fri, 05 Jul 2019 21:46:40: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:46:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 21:46:40: #1 tags after filtering in treatment: 5080612 INFO @ Fri, 05 Jul 2019 21:46:40: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:46:40: #1 finished! INFO @ Fri, 05 Jul 2019 21:46:40: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:46:40: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:46:40: 5000000 INFO @ Fri, 05 Jul 2019 21:46:41: 5000000 INFO @ Fri, 05 Jul 2019 21:46:41: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:46:41: 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 @ Fri, 05 Jul 2019 21:46:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:46:41: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:46:41: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:46:41: #1 total tags in treatment: 5080612 INFO @ Fri, 05 Jul 2019 21:46:41: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:46:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 21:46:41: #1 tags after filtering in treatment: 5080612 INFO @ Fri, 05 Jul 2019 21:46:41: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:46:41: #1 finished! INFO @ Fri, 05 Jul 2019 21:46:41: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:46:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:46:41: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:46:41: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:46:41: #1 total tags in treatment: 5080612 INFO @ Fri, 05 Jul 2019 21:46:41: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:46:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 21:46:41: #1 tags after filtering in treatment: 5080612 INFO @ Fri, 05 Jul 2019 21:46:41: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:46:41: #1 finished! INFO @ Fri, 05 Jul 2019 21:46:41: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:46:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:46:42: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:46:42: 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 @ Fri, 05 Jul 2019 21:46:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.10_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/SRX3294560/SRX3294560.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:46:42: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:46:42: 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 @ Fri, 05 Jul 2019 21:46:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.20_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/SRX3294560/SRX3294560.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294560/SRX3294560.20_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。