Job ID = 11162577 sra ファイルのダウンロード中... Completed: 640715K bytes transferred in 12 seconds (415726K 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 19373943 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585191/SRR6495891.sra Written 19373943 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585191/SRR6495891.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: 00:03:34 19373943 reads; of these: 19373943 (100.00%) were unpaired; of these: 2175357 (11.23%) aligned 0 times 14564929 (75.18%) aligned exactly 1 time 2633657 (13.59%) aligned >1 times 88.77% overall alignment rate Time searching: 00:03:34 Overall time: 00:03:34 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] 7091589 / 17198586 = 0.4123 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 @ Wed, 05 Sep 2018 10:15:08: # Command line: callpeak -t SRX3585191.bam -f BAM -g 12100000 -n SRX3585191.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3585191.10 # format = BAM # ChIP-seq file = ['SRX3585191.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 @ Wed, 05 Sep 2018 10:15:08: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:15:08: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:15:08: # Command line: callpeak -t SRX3585191.bam -f BAM -g 12100000 -n SRX3585191.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3585191.05 # format = BAM # ChIP-seq file = ['SRX3585191.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 @ Wed, 05 Sep 2018 10:15:08: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:15:08: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:15:08: # Command line: callpeak -t SRX3585191.bam -f BAM -g 12100000 -n SRX3585191.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3585191.20 # format = BAM # ChIP-seq file = ['SRX3585191.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 @ Wed, 05 Sep 2018 10:15:08: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:15:08: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:15:15: 1000000 INFO @ Wed, 05 Sep 2018 10:15:15: 1000000 INFO @ Wed, 05 Sep 2018 10:15:15: 1000000 INFO @ Wed, 05 Sep 2018 10:15:22: 2000000 INFO @ Wed, 05 Sep 2018 10:15:22: 2000000 INFO @ Wed, 05 Sep 2018 10:15:22: 2000000 INFO @ Wed, 05 Sep 2018 10:15:29: 3000000 INFO @ Wed, 05 Sep 2018 10:15:29: 3000000 INFO @ Wed, 05 Sep 2018 10:15:30: 3000000 INFO @ Wed, 05 Sep 2018 10:15:36: 4000000 INFO @ Wed, 05 Sep 2018 10:15:36: 4000000 INFO @ Wed, 05 Sep 2018 10:15:37: 4000000 INFO @ Wed, 05 Sep 2018 10:15:44: 5000000 INFO @ Wed, 05 Sep 2018 10:15:44: 5000000 INFO @ Wed, 05 Sep 2018 10:15:45: 5000000 INFO @ Wed, 05 Sep 2018 10:15:50: 6000000 INFO @ Wed, 05 Sep 2018 10:15:51: 6000000 INFO @ Wed, 05 Sep 2018 10:15:52: 6000000 INFO @ Wed, 05 Sep 2018 10:15:57: 7000000 INFO @ Wed, 05 Sep 2018 10:15:58: 7000000 INFO @ Wed, 05 Sep 2018 10:16:00: 7000000 INFO @ Wed, 05 Sep 2018 10:16:04: 8000000 INFO @ Wed, 05 Sep 2018 10:16:05: 8000000 INFO @ Wed, 05 Sep 2018 10:16:07: 8000000 INFO @ Wed, 05 Sep 2018 10:16:11: 9000000 INFO @ Wed, 05 Sep 2018 10:16:13: 9000000 INFO @ Wed, 05 Sep 2018 10:16:15: 9000000 INFO @ Wed, 05 Sep 2018 10:16:18: 10000000 INFO @ Wed, 05 Sep 2018 10:16:19: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:16:19: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:16:19: #1 total tags in treatment: 10106997 INFO @ Wed, 05 Sep 2018 10:16:19: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:16:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:16:19: #1 tags after filtering in treatment: 10106997 INFO @ Wed, 05 Sep 2018 10:16:19: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:16:19: #1 finished! INFO @ Wed, 05 Sep 2018 10:16:19: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:16:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:16:20: 10000000 INFO @ Wed, 05 Sep 2018 10:16:20: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:16:20: 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 @ Wed, 05 Sep 2018 10:16:20: Process for pairing-model is terminated! cat: SRX3585191.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585191.05_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 `SRX3585191.05_*.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 `SRX3585191.05_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 @ Wed, 05 Sep 2018 10:16:21: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:16:21: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:16:21: #1 total tags in treatment: 10106997 INFO @ Wed, 05 Sep 2018 10:16:21: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:16:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:16:21: #1 tags after filtering in treatment: 10106997 INFO @ Wed, 05 Sep 2018 10:16:21: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:16:21: #1 finished! INFO @ Wed, 05 Sep 2018 10:16:21: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:16:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:16:21: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:16:21: 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 @ Wed, 05 Sep 2018 10:16:21: Process for pairing-model is terminated! cat: SRX3585191.10_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585191.10_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 `SRX3585191.10_*.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 `SRX3585191.10_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 @ Wed, 05 Sep 2018 10:16:22: 10000000 INFO @ Wed, 05 Sep 2018 10:16:23: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:16:23: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:16:23: #1 total tags in treatment: 10106997 INFO @ Wed, 05 Sep 2018 10:16:23: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:16:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:16:23: #1 tags after filtering in treatment: 10106997 INFO @ Wed, 05 Sep 2018 10:16:23: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:16:23: #1 finished! INFO @ Wed, 05 Sep 2018 10:16:23: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:16:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:16:24: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:16:24: 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 @ Wed, 05 Sep 2018 10:16:24: Process for pairing-model is terminated! cat: SRX3585191.20_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585191.20_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 `SRX3585191.20_*.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 `SRX3585191.20_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。