Job ID = 11162627 sra ファイルのダウンロード中... Completed: 1001964K bytes transferred in 10 seconds (773010K 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 31220291 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585230/SRR6495929.sra Written 31220291 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585230/SRR6495929.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: 00:05:10 31220291 reads; of these: 31220291 (100.00%) were unpaired; of these: 2773275 (8.88%) aligned 0 times 25977795 (83.21%) aligned exactly 1 time 2469221 (7.91%) aligned >1 times 91.12% overall alignment rate Time searching: 00:05:10 Overall time: 00:05:10 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 12 files... [bam_rmdupse_core] 17403313 / 28447016 = 0.6118 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 10:46:47: # Command line: callpeak -t SRX3585230.bam -f BAM -g 12100000 -n SRX3585230.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3585230.10 # format = BAM # ChIP-seq file = ['SRX3585230.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 10:46:47: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:46:47: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:46:47: # Command line: callpeak -t SRX3585230.bam -f BAM -g 12100000 -n SRX3585230.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3585230.05 # format = BAM # ChIP-seq file = ['SRX3585230.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 10:46:47: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:46:47: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:46:47: # Command line: callpeak -t SRX3585230.bam -f BAM -g 12100000 -n SRX3585230.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3585230.20 # format = BAM # ChIP-seq file = ['SRX3585230.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 10:46:47: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:46:47: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:46:53: 1000000 INFO @ Wed, 05 Sep 2018 10:46:53: 1000000 INFO @ Wed, 05 Sep 2018 10:46:53: 1000000 INFO @ Wed, 05 Sep 2018 10:47:00: 2000000 INFO @ Wed, 05 Sep 2018 10:47:00: 2000000 INFO @ Wed, 05 Sep 2018 10:47:00: 2000000 INFO @ Wed, 05 Sep 2018 10:47:06: 3000000 INFO @ Wed, 05 Sep 2018 10:47:06: 3000000 INFO @ Wed, 05 Sep 2018 10:47:06: 3000000 INFO @ Wed, 05 Sep 2018 10:47:12: 4000000 INFO @ Wed, 05 Sep 2018 10:47:12: 4000000 INFO @ Wed, 05 Sep 2018 10:47:13: 4000000 INFO @ Wed, 05 Sep 2018 10:47:19: 5000000 INFO @ Wed, 05 Sep 2018 10:47:19: 5000000 INFO @ Wed, 05 Sep 2018 10:47:19: 5000000 INFO @ Wed, 05 Sep 2018 10:47:25: 6000000 INFO @ Wed, 05 Sep 2018 10:47:25: 6000000 INFO @ Wed, 05 Sep 2018 10:47:26: 6000000 INFO @ Wed, 05 Sep 2018 10:47:31: 7000000 INFO @ Wed, 05 Sep 2018 10:47:31: 7000000 INFO @ Wed, 05 Sep 2018 10:47:32: 7000000 INFO @ Wed, 05 Sep 2018 10:47:38: 8000000 INFO @ Wed, 05 Sep 2018 10:47:38: 8000000 INFO @ Wed, 05 Sep 2018 10:47:39: 8000000 INFO @ Wed, 05 Sep 2018 10:47:44: 9000000 INFO @ Wed, 05 Sep 2018 10:47:44: 9000000 INFO @ Wed, 05 Sep 2018 10:47:45: 9000000 INFO @ Wed, 05 Sep 2018 10:47:50: 10000000 INFO @ Wed, 05 Sep 2018 10:47:51: 10000000 INFO @ Wed, 05 Sep 2018 10:47:52: 10000000 INFO @ Wed, 05 Sep 2018 10:47:57: 11000000 INFO @ Wed, 05 Sep 2018 10:47:57: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:47:57: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:47:57: #1 total tags in treatment: 11043703 INFO @ Wed, 05 Sep 2018 10:47:57: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:47:57: #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 10:47:57: #1 tags after filtering in treatment: 11043703 INFO @ Wed, 05 Sep 2018 10:47:57: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:47:57: #1 finished! INFO @ Wed, 05 Sep 2018 10:47:57: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:47:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:47:57: 11000000 INFO @ Wed, 05 Sep 2018 10:47:58: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:47:58: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:47:58: #1 total tags in treatment: 11043703 INFO @ Wed, 05 Sep 2018 10:47:58: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:47:58: #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 10:47:58: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:47:58: 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 10:47:58: Process for pairing-model is terminated! cat: SRX3585230.20_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 `SRX3585230.20_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 `SRX3585230.20_*.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 `SRX3585230.20_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 INFO @ Wed, 05 Sep 2018 10:47:58: #1 tags after filtering in treatment: 11043703 INFO @ Wed, 05 Sep 2018 10:47:58: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:47:58: #1 finished! INFO @ Wed, 05 Sep 2018 10:47:58: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:47:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:47:58: 11000000 INFO @ Wed, 05 Sep 2018 10:47:59: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:47:59: 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 10:47:59: Process for pairing-model is terminated! cat: SRX3585230.05_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): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585230.05_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 `SRX3585230.05_*.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 `SRX3585230.05_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 10:47:59: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:47:59: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:47:59: #1 total tags in treatment: 11043703 INFO @ Wed, 05 Sep 2018 10:47:59: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:47:59: #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 10:47:59: #1 tags after filtering in treatment: 11043703 INFO @ Wed, 05 Sep 2018 10:47:59: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:47:59: #1 finished! INFO @ Wed, 05 Sep 2018 10:47:59: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:47:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:48:00: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:48:00: 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 10:48:00: Process for pairing-model is terminated! cat: SRX3585230.10_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585230.10_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 `SRX3585230.10_*.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 `SRX3585230.10_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。