Job ID = 11245226 sra ファイルのダウンロード中... Completed: 634928K bytes transferred in 8 seconds (581741K 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 22922396 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4717369/SRR7878692.sra Written 22922396 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4717369/SRR7878692.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: 00:05:00 22922396 reads; of these: 22922396 (100.00%) were unpaired; of these: 866241 (3.78%) aligned 0 times 15307168 (66.78%) aligned exactly 1 time 6748987 (29.44%) aligned >1 times 96.22% overall alignment rate Time searching: 00:05:00 Overall time: 00:05:00 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] 13827214 / 22056155 = 0.6269 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, 10 Oct 2018 00:03:46: # Command line: callpeak -t SRX4717369.bam -f BAM -g 12100000 -n SRX4717369.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4717369.10 # format = BAM # ChIP-seq file = ['SRX4717369.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, 10 Oct 2018 00:03:46: #1 read tag files... INFO @ Wed, 10 Oct 2018 00:03:46: #1 read treatment tags... INFO @ Wed, 10 Oct 2018 00:03:46: # Command line: callpeak -t SRX4717369.bam -f BAM -g 12100000 -n SRX4717369.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4717369.05 # format = BAM # ChIP-seq file = ['SRX4717369.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, 10 Oct 2018 00:03:46: #1 read tag files... INFO @ Wed, 10 Oct 2018 00:03:46: #1 read treatment tags... INFO @ Wed, 10 Oct 2018 00:03:46: # Command line: callpeak -t SRX4717369.bam -f BAM -g 12100000 -n SRX4717369.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4717369.20 # format = BAM # ChIP-seq file = ['SRX4717369.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, 10 Oct 2018 00:03:46: #1 read tag files... INFO @ Wed, 10 Oct 2018 00:03:46: #1 read treatment tags... INFO @ Wed, 10 Oct 2018 00:03:52: 1000000 INFO @ Wed, 10 Oct 2018 00:03:52: 1000000 INFO @ Wed, 10 Oct 2018 00:03:52: 1000000 INFO @ Wed, 10 Oct 2018 00:03:59: 2000000 INFO @ Wed, 10 Oct 2018 00:03:59: 2000000 INFO @ Wed, 10 Oct 2018 00:03:59: 2000000 INFO @ Wed, 10 Oct 2018 00:04:05: 3000000 INFO @ Wed, 10 Oct 2018 00:04:05: 3000000 INFO @ Wed, 10 Oct 2018 00:04:06: 3000000 INFO @ Wed, 10 Oct 2018 00:04:11: 4000000 INFO @ Wed, 10 Oct 2018 00:04:12: 4000000 INFO @ Wed, 10 Oct 2018 00:04:13: 4000000 INFO @ Wed, 10 Oct 2018 00:04:18: 5000000 INFO @ Wed, 10 Oct 2018 00:04:19: 5000000 INFO @ Wed, 10 Oct 2018 00:04:19: 5000000 INFO @ Wed, 10 Oct 2018 00:04:25: 6000000 INFO @ Wed, 10 Oct 2018 00:04:26: 6000000 INFO @ Wed, 10 Oct 2018 00:04:26: 6000000 INFO @ Wed, 10 Oct 2018 00:04:31: 7000000 INFO @ Wed, 10 Oct 2018 00:04:33: 7000000 INFO @ Wed, 10 Oct 2018 00:04:33: 7000000 INFO @ Wed, 10 Oct 2018 00:04:38: 8000000 INFO @ Wed, 10 Oct 2018 00:04:40: #1 tag size is determined as 76 bps INFO @ Wed, 10 Oct 2018 00:04:40: #1 tag size = 76 INFO @ Wed, 10 Oct 2018 00:04:40: #1 total tags in treatment: 8228941 INFO @ Wed, 10 Oct 2018 00:04:40: #1 user defined the maximum tags... INFO @ Wed, 10 Oct 2018 00:04:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 10 Oct 2018 00:04:40: 8000000 INFO @ Wed, 10 Oct 2018 00:04:40: 8000000 INFO @ Wed, 10 Oct 2018 00:04:40: #1 tags after filtering in treatment: 8228941 INFO @ Wed, 10 Oct 2018 00:04:40: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 10 Oct 2018 00:04:40: #1 finished! INFO @ Wed, 10 Oct 2018 00:04:40: #2 Build Peak Model... INFO @ Wed, 10 Oct 2018 00:04:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 10 Oct 2018 00:04:40: #2 number of paired peaks: 0 WARNING @ Wed, 10 Oct 2018 00:04:40: 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, 10 Oct 2018 00:04:40: Process for pairing-model is terminated! cat: SRX4717369.20_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 `SRX4717369.20_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 `SRX4717369.20_*.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 `SRX4717369.20_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, 10 Oct 2018 00:04:41: #1 tag size is determined as 76 bps INFO @ Wed, 10 Oct 2018 00:04:41: #1 tag size = 76 INFO @ Wed, 10 Oct 2018 00:04:41: #1 total tags in treatment: 8228941 INFO @ Wed, 10 Oct 2018 00:04:41: #1 user defined the maximum tags... INFO @ Wed, 10 Oct 2018 00:04:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 10 Oct 2018 00:04:41: #1 tag size is determined as 76 bps INFO @ Wed, 10 Oct 2018 00:04:41: #1 tag size = 76 INFO @ Wed, 10 Oct 2018 00:04:41: #1 total tags in treatment: 8228941 INFO @ Wed, 10 Oct 2018 00:04:41: #1 user defined the maximum tags... INFO @ Wed, 10 Oct 2018 00:04:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 10 Oct 2018 00:04:42: #1 tags after filtering in treatment: 8228941 INFO @ Wed, 10 Oct 2018 00:04:42: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 10 Oct 2018 00:04:42: #1 finished! INFO @ Wed, 10 Oct 2018 00:04:42: #2 Build Peak Model... INFO @ Wed, 10 Oct 2018 00:04:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 10 Oct 2018 00:04:42: #1 tags after filtering in treatment: 8228941 INFO @ Wed, 10 Oct 2018 00:04:42: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 10 Oct 2018 00:04:42: #1 finished! INFO @ Wed, 10 Oct 2018 00:04:42: #2 Build Peak Model... INFO @ Wed, 10 Oct 2018 00:04:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 10 Oct 2018 00:04:42: #2 number of paired peaks: 0 WARNING @ Wed, 10 Oct 2018 00:04:42: 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, 10 Oct 2018 00:04:42: Process for pairing-model is terminated! cat: SRX4717369.10_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 `SRX4717369.10_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 `SRX4717369.10_*.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 `SRX4717369.10_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, 10 Oct 2018 00:04:42: #2 number of paired peaks: 0 WARNING @ Wed, 10 Oct 2018 00:04:42: 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, 10 Oct 2018 00:04:42: Process for pairing-model is terminated! cat: SRX4717369.05_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 `SRX4717369.05_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 `SRX4717369.05_*.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 `SRX4717369.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。