Job ID = 2009842 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T11:21:31 fasterq-dump.2.9.6 sys: error unknown while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) spots read : 31,998,515 reads read : 31,998,515 reads written : 31,998,515 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: 00:04:01 31998515 reads; of these: 31998515 (100.00%) were unpaired; of these: 15212253 (47.54%) aligned 0 times 13438521 (42.00%) aligned exactly 1 time 3347741 (10.46%) aligned >1 times 52.46% overall alignment rate Time searching: 00:04:01 Overall time: 00:04:01 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] 14979539 / 16786262 = 0.8924 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 20:39:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.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 20:39:13: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:39:13: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:39:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.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 20:39:13: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:39:13: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:39:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.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 20:39:13: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:39:13: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:39:21: 1000000 INFO @ Fri, 05 Jul 2019 20:39:21: 1000000 INFO @ Fri, 05 Jul 2019 20:39:24: 1000000 INFO @ Fri, 05 Jul 2019 20:39:28: #1 tag size is determined as 43 bps INFO @ Fri, 05 Jul 2019 20:39:28: #1 tag size = 43 INFO @ Fri, 05 Jul 2019 20:39:28: #1 total tags in treatment: 1806723 INFO @ Fri, 05 Jul 2019 20:39:28: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:39:28: #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 20:39:28: #1 tags after filtering in treatment: 1806723 INFO @ Fri, 05 Jul 2019 20:39:28: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:39:28: #1 finished! INFO @ Fri, 05 Jul 2019 20:39:28: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:39:28: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:39:28: #2 number of paired peaks: 86 INFO @ Fri, 05 Jul 2019 20:39:28: #1 tag size is determined as 43 bps WARNING @ Fri, 05 Jul 2019 20:39:28: Too few paired peaks (86) 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. INFO @ Fri, 05 Jul 2019 20:39:28: #1 tag size = 43 WARNING @ Fri, 05 Jul 2019 20:39:28: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 20:39:28: #1 total tags in treatment: 1806723 INFO @ Fri, 05 Jul 2019 20:39:28: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:39:28: #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 20:39:28: #1 tags after filtering in treatment: 1806723 INFO @ Fri, 05 Jul 2019 20:39:28: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:39:28: #1 finished! INFO @ Fri, 05 Jul 2019 20:39:28: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:39:28: #2 looking for paired plus/minus strand peaks... cut: /home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.20_peaks.narrowPeak: No such file or directory INFO @ Fri, 05 Jul 2019 20:39:28: #2 number of paired peaks: 86 WARNING @ Fri, 05 Jul 2019 20:39:28: Too few paired peaks (86) 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 20:39:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.10_peaks.narrowPeak: No such file or directory INFO @ Fri, 05 Jul 2019 20:39:33: #1 tag size is determined as 43 bps INFO @ Fri, 05 Jul 2019 20:39:33: #1 tag size = 43 INFO @ Fri, 05 Jul 2019 20:39:33: #1 total tags in treatment: 1806723 INFO @ Fri, 05 Jul 2019 20:39:33: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:39:33: #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 20:39:33: #1 tags after filtering in treatment: 1806723 INFO @ Fri, 05 Jul 2019 20:39:33: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:39:33: #1 finished! INFO @ Fri, 05 Jul 2019 20:39:33: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:39:33: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:39:34: #2 number of paired peaks: 86 WARNING @ Fri, 05 Jul 2019 20:39:34: Too few paired peaks (86) 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 20:39:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms)pass1 - making usageList (0 chroms)pass1 - making usageList (0 chroms): 2 millis : 2 millis : 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/SRX193141/SRX193141.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.10_model.r’: No such file or directoryrm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.05_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.10_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193141/SRX193141.20_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。