Job ID = 2009641 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 2,316,809 reads read : 2,316,809 reads written : 2,316,809 spots read : 4,000,000 reads read : 4,000,000 reads written : 4,000,000 spots read : 4,000,000 reads read : 4,000,000 reads written : 4,000,000 2019-07-05T10:24:19 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 ) 2019-07-05T10:24:19 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 : 4,000,000 reads read : 4,000,000 reads written : 4,000,000 rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR778535.sra.cache’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR778627.sra.cache’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR778673.sra.cache’: 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: 00:02:25 14316809 reads; of these: 14316809 (100.00%) were unpaired; of these: 2365134 (16.52%) aligned 0 times 10762051 (75.17%) aligned exactly 1 time 1189624 (8.31%) aligned >1 times 83.48% overall alignment rate Time searching: 00:02:25 Overall time: 00:02:25 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] 6834528 / 11951675 = 0.5718 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 19:31:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.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 19:31:25: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:31:25: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:31:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.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 19:31:26: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:31:26: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:31:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.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 19:31:27: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:31:27: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:31:32: 1000000 INFO @ Fri, 05 Jul 2019 19:31:33: 1000000 INFO @ Fri, 05 Jul 2019 19:31:34: 1000000 INFO @ Fri, 05 Jul 2019 19:31:40: 2000000 INFO @ Fri, 05 Jul 2019 19:31:41: 2000000 INFO @ Fri, 05 Jul 2019 19:31:41: 2000000 INFO @ Fri, 05 Jul 2019 19:31:48: 3000000 INFO @ Fri, 05 Jul 2019 19:31:49: 3000000 INFO @ Fri, 05 Jul 2019 19:31:49: 3000000 INFO @ Fri, 05 Jul 2019 19:31:55: 4000000 INFO @ Fri, 05 Jul 2019 19:31:56: 4000000 INFO @ Fri, 05 Jul 2019 19:31:57: 4000000 INFO @ Fri, 05 Jul 2019 19:32:02: 5000000 INFO @ Fri, 05 Jul 2019 19:32:03: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 19:32:03: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 19:32:03: #1 total tags in treatment: 5117147 INFO @ Fri, 05 Jul 2019 19:32:03: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:32:03: #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 19:32:03: #1 tags after filtering in treatment: 5117147 INFO @ Fri, 05 Jul 2019 19:32:03: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 19:32:03: #1 finished! INFO @ Fri, 05 Jul 2019 19:32:03: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:32:03: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:32:03: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:32:03: 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 19:32:03: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 19:32:04: 5000000 INFO @ Fri, 05 Jul 2019 19:32:05: 5000000 INFO @ Fri, 05 Jul 2019 19:32:05: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 19:32:05: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 19:32:05: #1 total tags in treatment: 5117147 INFO @ Fri, 05 Jul 2019 19:32:05: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:32:05: #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 19:32:05: #1 tags after filtering in treatment: 5117147 INFO @ Fri, 05 Jul 2019 19:32:05: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 19:32:05: #1 finished! INFO @ Fri, 05 Jul 2019 19:32:05: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:32:05: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:32:06: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:32:06: 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 19:32:06: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 19:32:06: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 19:32:06: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 19:32:06: #1 total tags in treatment: 5117147 INFO @ Fri, 05 Jul 2019 19:32:06: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:32:06: #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 19:32:06: #1 tags after filtering in treatment: 5117147 INFO @ Fri, 05 Jul 2019 19:32:06: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 19:32:06: #1 finished! INFO @ Fri, 05 Jul 2019 19:32:06: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:32:06: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:32:06: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:32:06: 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 19:32:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.10_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.05_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms)pass1 - making usageList (0 chroms): 2 millis : 2 millis pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.05_model.r’rm: : No such file or directorycannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.20_*.xls’ : No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.20_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.10_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX769122/ERX769122.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling CompletedMACS2peakCalling CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。