Job ID = 2007659 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 1900-01-00T00:00:00 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 ) 2019-07-05T07:06:11 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 ) 2019-07-05T07:07:37 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 ) 2019-07-05T07:12:11 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 : 16,739,393 reads read : 16,739,393 reads written : 16,739,393 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: 00:04:52 16739393 reads; of these: 16739393 (100.00%) were unpaired; of these: 1214719 (7.26%) aligned 0 times 13400371 (80.05%) aligned exactly 1 time 2124303 (12.69%) aligned >1 times 92.74% overall alignment rate Time searching: 00:04:52 Overall time: 00:04:52 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] 7984811 / 15524674 = 0.5143 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 16:22:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.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 16:22:31: #1 read tag files... INFO @ Fri, 05 Jul 2019 16:22:31: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 16:22:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.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 16:22:32: #1 read tag files... INFO @ Fri, 05 Jul 2019 16:22:32: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 16:22:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.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 16:22:33: #1 read tag files... INFO @ Fri, 05 Jul 2019 16:22:33: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 16:22:37: 1000000 INFO @ Fri, 05 Jul 2019 16:22:38: 1000000 INFO @ Fri, 05 Jul 2019 16:22:39: 1000000 INFO @ Fri, 05 Jul 2019 16:22:44: 2000000 INFO @ Fri, 05 Jul 2019 16:22:45: 2000000 INFO @ Fri, 05 Jul 2019 16:22:46: 2000000 INFO @ Fri, 05 Jul 2019 16:22:51: 3000000 INFO @ Fri, 05 Jul 2019 16:22:52: 3000000 INFO @ Fri, 05 Jul 2019 16:22:53: 3000000 INFO @ Fri, 05 Jul 2019 16:22:57: 4000000 INFO @ Fri, 05 Jul 2019 16:22:58: 4000000 INFO @ Fri, 05 Jul 2019 16:22:59: 4000000 INFO @ Fri, 05 Jul 2019 16:23:04: 5000000 INFO @ Fri, 05 Jul 2019 16:23:05: 5000000 INFO @ Fri, 05 Jul 2019 16:23:06: 5000000 INFO @ Fri, 05 Jul 2019 16:23:10: 6000000 INFO @ Fri, 05 Jul 2019 16:23:12: 6000000 INFO @ Fri, 05 Jul 2019 16:23:13: 6000000 INFO @ Fri, 05 Jul 2019 16:23:17: 7000000 INFO @ Fri, 05 Jul 2019 16:23:18: 7000000 INFO @ Fri, 05 Jul 2019 16:23:19: 7000000 INFO @ Fri, 05 Jul 2019 16:23:20: #1 tag size is determined as 36 bps INFO @ Fri, 05 Jul 2019 16:23:20: #1 tag size = 36 INFO @ Fri, 05 Jul 2019 16:23:20: #1 total tags in treatment: 7539863 INFO @ Fri, 05 Jul 2019 16:23:20: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 16:23:20: #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 16:23:21: #1 tags after filtering in treatment: 7539863 INFO @ Fri, 05 Jul 2019 16:23:21: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 16:23:21: #1 finished! INFO @ Fri, 05 Jul 2019 16:23:21: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 16:23:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 16:23:21: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 16:23:21: 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 16:23:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.05_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/ERX291902/ERX291902.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 16:23:22: #1 tag size is determined as 36 bps INFO @ Fri, 05 Jul 2019 16:23:22: #1 tag size = 36 INFO @ Fri, 05 Jul 2019 16:23:22: #1 total tags in treatment: 7539863 INFO @ Fri, 05 Jul 2019 16:23:22: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 16:23:22: #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 16:23:22: #1 tags after filtering in treatment: 7539863 INFO @ Fri, 05 Jul 2019 16:23:22: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 16:23:22: #1 finished! INFO @ Fri, 05 Jul 2019 16:23:22: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 16:23:22: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 16:23:23: #1 tag size is determined as 36 bps INFO @ Fri, 05 Jul 2019 16:23:23: #1 tag size = 36 INFO @ Fri, 05 Jul 2019 16:23:23: #1 total tags in treatment: 7539863 INFO @ Fri, 05 Jul 2019 16:23:23: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 16:23:23: #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 16:23:23: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 16:23:23: 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 16:23:23: Process for pairing-model is terminated! cut: INFO @ Fri, 05 Jul 2019 16:23:23: #1 tags after filtering in treatment: 7539863 /home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.10_peaks.narrowPeakINFO @ Fri, 05 Jul 2019 16:23:23: #1 Redundant rate of treatment: 0.00 : No such file or directory INFO @ Fri, 05 Jul 2019 16:23:23: #1 finished! INFO @ Fri, 05 Jul 2019 16:23:23: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 16:23:23: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 16:23:23: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 16:23:23: 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 16:23:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.20_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/ERX291902/ERX291902.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX291902/ERX291902.20_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。