Job ID = 2010192 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T12:43:27 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 ) 2019-07-05T12:43:27 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 : 17,048,803 reads read : 34,097,606 reads written : 17,048,803 reads 0-length : 17,048,803 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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:03:22 17048803 reads; of these: 17048803 (100.00%) were unpaired; of these: 1140961 (6.69%) aligned 0 times 14151004 (83.00%) aligned exactly 1 time 1756838 (10.30%) aligned >1 times 93.31% overall alignment rate Time searching: 00:03:23 Overall time: 00:03:23 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 6200030 / 15907842 = 0.3897 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 @ Fri, 05 Jul 2019 21:52:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.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 @ Fri, 05 Jul 2019 21:52:30: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:52:30: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:52:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.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 21:52:31: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:52:31: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:52:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.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 21:52:32: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:52:32: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:52:38: 1000000 INFO @ Fri, 05 Jul 2019 21:52:39: 1000000 INFO @ Fri, 05 Jul 2019 21:52:40: 1000000 INFO @ Fri, 05 Jul 2019 21:52:46: 2000000 INFO @ Fri, 05 Jul 2019 21:52:47: 2000000 INFO @ Fri, 05 Jul 2019 21:52:47: 2000000 INFO @ Fri, 05 Jul 2019 21:52:54: 3000000 INFO @ Fri, 05 Jul 2019 21:52:55: 3000000 INFO @ Fri, 05 Jul 2019 21:52:55: 3000000 INFO @ Fri, 05 Jul 2019 21:53:02: 4000000 INFO @ Fri, 05 Jul 2019 21:53:03: 4000000 INFO @ Fri, 05 Jul 2019 21:53:04: 4000000 INFO @ Fri, 05 Jul 2019 21:53:11: 5000000 INFO @ Fri, 05 Jul 2019 21:53:12: 5000000 INFO @ Fri, 05 Jul 2019 21:53:13: 5000000 INFO @ Fri, 05 Jul 2019 21:53:21: 6000000 INFO @ Fri, 05 Jul 2019 21:53:21: 6000000 INFO @ Fri, 05 Jul 2019 21:53:23: 6000000 INFO @ Fri, 05 Jul 2019 21:53:29: 7000000 INFO @ Fri, 05 Jul 2019 21:53:30: 7000000 INFO @ Fri, 05 Jul 2019 21:53:32: 7000000 INFO @ Fri, 05 Jul 2019 21:53:37: 8000000 INFO @ Fri, 05 Jul 2019 21:53:39: 8000000 INFO @ Fri, 05 Jul 2019 21:53:40: 8000000 INFO @ Fri, 05 Jul 2019 21:53:45: 9000000 INFO @ Fri, 05 Jul 2019 21:53:47: 9000000 INFO @ Fri, 05 Jul 2019 21:53:48: 9000000 INFO @ Fri, 05 Jul 2019 21:53:50: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:53:50: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:53:50: #1 total tags in treatment: 9707812 INFO @ Fri, 05 Jul 2019 21:53:50: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:53:50: #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 21:53:50: #1 tags after filtering in treatment: 9707812 INFO @ Fri, 05 Jul 2019 21:53:50: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:53:50: #1 finished! INFO @ Fri, 05 Jul 2019 21:53:50: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:53:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:53:51: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:53:51: 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 21:53:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.20_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/sacCer3/SRX3294565/SRX3294565.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:53:52: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:53:52: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:53:52: #1 total tags in treatment: 9707812 INFO @ Fri, 05 Jul 2019 21:53:52: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:53:52: #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 21:53:53: #1 tags after filtering in treatment: 9707812 INFO @ Fri, 05 Jul 2019 21:53:53: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:53:53: #1 finished! INFO @ Fri, 05 Jul 2019 21:53:53: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:53:53: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:53:53: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:53:53: 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 21:53:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.05_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/SRX3294565/SRX3294565.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:53:54: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:53:54: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:53:54: #1 total tags in treatment: 9707812 INFO @ Fri, 05 Jul 2019 21:53:54: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:53:54: #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 21:53:54: #1 tags after filtering in treatment: 9707812 INFO @ Fri, 05 Jul 2019 21:53:54: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:53:54: #1 finished! INFO @ Fri, 05 Jul 2019 21:53:54: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:53:54: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:53:55: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:53:55: 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 21:53:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294565/SRX3294565.10_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。