Job ID = 9163653 sra ファイルのダウンロード中... Completed: 1402303K bytes transferred in 15 seconds (729308K bits/sec), in 1 file, 2 directories. sra ファイルのダウンロードが完了しました。 Read layout: PAIRED fastq に変換中... Written 14281114 spots for /home/okishinya/chipatlas/results/sacCer3/SRX997169/SRR1976201.sra Written 14281114 spots total 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: 00:12:59 14281114 reads; of these: 14281114 (100.00%) were paired; of these: 2931603 (20.53%) aligned concordantly 0 times 9583474 (67.11%) aligned concordantly exactly 1 time 1766037 (12.37%) aligned concordantly >1 times ---- 2931603 pairs aligned concordantly 0 times; of these: 420203 (14.33%) aligned discordantly 1 time ---- 2511400 pairs aligned 0 times concordantly or discordantly; of these: 5022800 mates make up the pairs; of these: 4554594 (90.68%) aligned 0 times 261419 (5.20%) aligned exactly 1 time 206787 (4.12%) aligned >1 times 84.05% overall alignment rate Time searching: 00:12:59 Overall time: 00:12:59 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_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 2688418 / 11695535 = 0.2299 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, 28 Jun 2017 11:34:36: # Command line: callpeak -t SRX997169.bam -f BAM -g 12100000 -n SRX997169.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX997169.20 # format = BAM # ChIP-seq file = ['SRX997169.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, 28 Jun 2017 11:34:36: # Command line: callpeak -t SRX997169.bam -f BAM -g 12100000 -n SRX997169.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX997169.05 # format = BAM # ChIP-seq file = ['SRX997169.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, 28 Jun 2017 11:34:36: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:34:36: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:34:36: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:34:36: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:34:36: # Command line: callpeak -t SRX997169.bam -f BAM -g 12100000 -n SRX997169.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX997169.10 # format = BAM # ChIP-seq file = ['SRX997169.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, 28 Jun 2017 11:34:36: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:34:36: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:34:43: 1000000 INFO @ Wed, 28 Jun 2017 11:34:44: 1000000 INFO @ Wed, 28 Jun 2017 11:34:44: 1000000 INFO @ Wed, 28 Jun 2017 11:34:50: 2000000 INFO @ Wed, 28 Jun 2017 11:34:51: 2000000 INFO @ Wed, 28 Jun 2017 11:34:51: 2000000 INFO @ Wed, 28 Jun 2017 11:34:58: 3000000 INFO @ Wed, 28 Jun 2017 11:34:59: 3000000 INFO @ Wed, 28 Jun 2017 11:34:59: 3000000 INFO @ Wed, 28 Jun 2017 11:35:05: 4000000 INFO @ Wed, 28 Jun 2017 11:35:06: 4000000 INFO @ Wed, 28 Jun 2017 11:35:06: 4000000 INFO @ Wed, 28 Jun 2017 11:35:12: 5000000 INFO @ Wed, 28 Jun 2017 11:35:14: 5000000 INFO @ Wed, 28 Jun 2017 11:35:14: 5000000 INFO @ Wed, 28 Jun 2017 11:35:18: 6000000 INFO @ Wed, 28 Jun 2017 11:35:21: 6000000 INFO @ Wed, 28 Jun 2017 11:35:21: 6000000 INFO @ Wed, 28 Jun 2017 11:35:25: 7000000 INFO @ Wed, 28 Jun 2017 11:35:28: 7000000 INFO @ Wed, 28 Jun 2017 11:35:28: 7000000 INFO @ Wed, 28 Jun 2017 11:35:32: 8000000 INFO @ Wed, 28 Jun 2017 11:35:36: 8000000 INFO @ Wed, 28 Jun 2017 11:35:36: 8000000 INFO @ Wed, 28 Jun 2017 11:35:39: 9000000 INFO @ Wed, 28 Jun 2017 11:35:43: 9000000 INFO @ Wed, 28 Jun 2017 11:35:43: 9000000 INFO @ Wed, 28 Jun 2017 11:35:46: 10000000 INFO @ Wed, 28 Jun 2017 11:35:51: 10000000 INFO @ Wed, 28 Jun 2017 11:35:51: 10000000 INFO @ Wed, 28 Jun 2017 11:35:53: 11000000 INFO @ Wed, 28 Jun 2017 11:35:58: 11000000 INFO @ Wed, 28 Jun 2017 11:35:58: 11000000 INFO @ Wed, 28 Jun 2017 11:36:00: 12000000 INFO @ Wed, 28 Jun 2017 11:36:06: 12000000 INFO @ Wed, 28 Jun 2017 11:36:06: 12000000 INFO @ Wed, 28 Jun 2017 11:36:07: 13000000 INFO @ Wed, 28 Jun 2017 11:36:13: 13000000 INFO @ Wed, 28 Jun 2017 11:36:13: 13000000 INFO @ Wed, 28 Jun 2017 11:36:14: 14000000 INFO @ Wed, 28 Jun 2017 11:36:20: 14000000 INFO @ Wed, 28 Jun 2017 11:36:20: 14000000 INFO @ Wed, 28 Jun 2017 11:36:21: 15000000 INFO @ Wed, 28 Jun 2017 11:36:28: 15000000 INFO @ Wed, 28 Jun 2017 11:36:28: 15000000 INFO @ Wed, 28 Jun 2017 11:36:28: 16000000 INFO @ Wed, 28 Jun 2017 11:36:35: 16000000 INFO @ Wed, 28 Jun 2017 11:36:35: 16000000 INFO @ Wed, 28 Jun 2017 11:36:35: 17000000 INFO @ Wed, 28 Jun 2017 11:36:42: 18000000 INFO @ Wed, 28 Jun 2017 11:36:43: 17000000 INFO @ Wed, 28 Jun 2017 11:36:43: 17000000 INFO @ Wed, 28 Jun 2017 11:36:47: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 11:36:47: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 11:36:47: #1 total tags in treatment: 8684104 INFO @ Wed, 28 Jun 2017 11:36:47: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:36:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 11:36:47: #1 tags after filtering in treatment: 4211983 INFO @ Wed, 28 Jun 2017 11:36:47: #1 Redundant rate of treatment: 0.51 INFO @ Wed, 28 Jun 2017 11:36:47: #1 finished! INFO @ Wed, 28 Jun 2017 11:36:47: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:36:47: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:36:47: #2 number of paired peaks: 3 WARNING @ Wed, 28 Jun 2017 11:36:47: Too few paired peaks (3) 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, 28 Jun 2017 11:36:47: Process for pairing-model is terminated! cat: SRX997169.10_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 `SRX997169.10_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 `SRX997169.10_*.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 `SRX997169.10_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, 28 Jun 2017 11:36:50: 18000000 INFO @ Wed, 28 Jun 2017 11:36:50: 18000000 INFO @ Wed, 28 Jun 2017 11:36:55: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 11:36:55: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 11:36:55: #1 total tags in treatment: 8684104 INFO @ Wed, 28 Jun 2017 11:36:55: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:36:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 11:36:55: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 11:36:55: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 11:36:55: #1 total tags in treatment: 8684104 INFO @ Wed, 28 Jun 2017 11:36:55: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:36:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 11:36:55: #1 tags after filtering in treatment: 4211983 INFO @ Wed, 28 Jun 2017 11:36:55: #1 Redundant rate of treatment: 0.51 INFO @ Wed, 28 Jun 2017 11:36:55: #1 finished! INFO @ Wed, 28 Jun 2017 11:36:55: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:36:55: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:36:55: #1 tags after filtering in treatment: 4211983 INFO @ Wed, 28 Jun 2017 11:36:55: #1 Redundant rate of treatment: 0.51 INFO @ Wed, 28 Jun 2017 11:36:55: #1 finished! INFO @ Wed, 28 Jun 2017 11:36:55: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:36:55: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:36:55: #2 number of paired peaks: 3 WARNING @ Wed, 28 Jun 2017 11:36:55: Too few paired peaks (3) 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, 28 Jun 2017 11:36:55: Process for pairing-model is terminated! cat: SRX997169.05_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 `SRX997169.05_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 `SRX997169.05_*.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 `SRX997169.05_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, 28 Jun 2017 11:36:55: #2 number of paired peaks: 3 WARNING @ Wed, 28 Jun 2017 11:36:55: Too few paired peaks (3) 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, 28 Jun 2017 11:36:55: Process for pairing-model is terminated! cat: SRX997169.20_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX997169.20_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 `SRX997169.20_*.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 `SRX997169.20_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。