Job ID = 11192626 sra ファイルのダウンロード中... Completed: 412491K bytes transferred in 7 seconds (467296K bits/sec), in 1 file. sra ファイルのダウンロードが完了しました。 Read layout: SINGLE fastq に変換中... Read 14181985 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1143280/SRR2156292.sra Written 14181985 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1143280/SRR2156292.sra rm: cannot remove `[DSE]RX*': そのようなファイルやディレクトリはありません rm: cannot remove `[DSE]RR*.fastq': そのようなファイルやディレクトリはありません 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: 00:03:32 14181985 reads; of these: 14181985 (100.00%) were unpaired; of these: 1045518 (7.37%) aligned 0 times 11591518 (81.73%) aligned exactly 1 time 1544949 (10.89%) aligned >1 times 92.63% overall alignment rate Time searching: 00:03:32 Overall time: 00:03:32 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] 5392866 / 13136467 = 0.4105 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 @ Sat, 15 Sep 2018 09:42:16: # Command line: callpeak -t SRX1143280.bam -f BAM -g 12100000 -n SRX1143280.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1143280.10 # format = BAM # ChIP-seq file = ['SRX1143280.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 @ Sat, 15 Sep 2018 09:42:16: #1 read tag files... INFO @ Sat, 15 Sep 2018 09:42:16: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 09:42:16: # Command line: callpeak -t SRX1143280.bam -f BAM -g 12100000 -n SRX1143280.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1143280.05 # format = BAM # ChIP-seq file = ['SRX1143280.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 @ Sat, 15 Sep 2018 09:42:16: #1 read tag files... INFO @ Sat, 15 Sep 2018 09:42:16: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 09:42:16: # Command line: callpeak -t SRX1143280.bam -f BAM -g 12100000 -n SRX1143280.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1143280.20 # format = BAM # ChIP-seq file = ['SRX1143280.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 @ Sat, 15 Sep 2018 09:42:16: #1 read tag files... INFO @ Sat, 15 Sep 2018 09:42:16: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 09:42:23: 1000000 INFO @ Sat, 15 Sep 2018 09:42:23: 1000000 INFO @ Sat, 15 Sep 2018 09:42:23: 1000000 INFO @ Sat, 15 Sep 2018 09:42:30: 2000000 INFO @ Sat, 15 Sep 2018 09:42:30: 2000000 INFO @ Sat, 15 Sep 2018 09:42:31: 2000000 INFO @ Sat, 15 Sep 2018 09:42:36: 3000000 INFO @ Sat, 15 Sep 2018 09:42:37: 3000000 INFO @ Sat, 15 Sep 2018 09:42:38: 3000000 INFO @ Sat, 15 Sep 2018 09:42:43: 4000000 INFO @ Sat, 15 Sep 2018 09:42:44: 4000000 INFO @ Sat, 15 Sep 2018 09:42:44: 4000000 INFO @ Sat, 15 Sep 2018 09:42:50: 5000000 INFO @ Sat, 15 Sep 2018 09:42:51: 5000000 INFO @ Sat, 15 Sep 2018 09:42:51: 5000000 INFO @ Sat, 15 Sep 2018 09:42:56: 6000000 INFO @ Sat, 15 Sep 2018 09:42:58: 6000000 INFO @ Sat, 15 Sep 2018 09:42:58: 6000000 INFO @ Sat, 15 Sep 2018 09:43:03: 7000000 INFO @ Sat, 15 Sep 2018 09:43:05: 7000000 INFO @ Sat, 15 Sep 2018 09:43:05: 7000000 INFO @ Sat, 15 Sep 2018 09:43:08: #1 tag size is determined as 78 bps INFO @ Sat, 15 Sep 2018 09:43:08: #1 tag size = 78 INFO @ Sat, 15 Sep 2018 09:43:08: #1 total tags in treatment: 7743601 INFO @ Sat, 15 Sep 2018 09:43:08: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 09:43:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 09:43:08: #1 tags after filtering in treatment: 7743601 INFO @ Sat, 15 Sep 2018 09:43:08: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 09:43:08: #1 finished! INFO @ Sat, 15 Sep 2018 09:43:08: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 09:43:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 09:43:08: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 09:43:08: 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 @ Sat, 15 Sep 2018 09:43:08: Process for pairing-model is terminated! cat: SRX1143280.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1143280.10_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1143280.10_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1143280.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Sat, 15 Sep 2018 09:43:10: #1 tag size is determined as 78 bps INFO @ Sat, 15 Sep 2018 09:43:10: #1 tag size = 78 INFO @ Sat, 15 Sep 2018 09:43:10: #1 total tags in treatment: 7743601 INFO @ Sat, 15 Sep 2018 09:43:10: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 09:43:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 09:43:10: #1 tags after filtering in treatment: 7743601 INFO @ Sat, 15 Sep 2018 09:43:10: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 09:43:10: #1 finished! INFO @ Sat, 15 Sep 2018 09:43:10: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 09:43:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 09:43:10: #1 tag size is determined as 78 bps INFO @ Sat, 15 Sep 2018 09:43:10: #1 tag size = 78 INFO @ Sat, 15 Sep 2018 09:43:10: #1 total tags in treatment: 7743601 INFO @ Sat, 15 Sep 2018 09:43:10: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 09:43:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 09:43:11: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 09:43:11: 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 @ Sat, 15 Sep 2018 09:43:11: Process for pairing-model is terminated! cat: SRX1143280.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1143280.05_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1143280.05_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1143280.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Sat, 15 Sep 2018 09:43:11: #1 tags after filtering in treatment: 7743601 INFO @ Sat, 15 Sep 2018 09:43:11: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 09:43:11: #1 finished! INFO @ Sat, 15 Sep 2018 09:43:11: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 09:43:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 09:43:11: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 09:43:11: 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 @ Sat, 15 Sep 2018 09:43:11: Process for pairing-model is terminated! cat: SRX1143280.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1143280.20_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1143280.20_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1143280.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。