Job ID = 9161696 sra ファイルのダウンロード中... Completed: 880340K bytes transferred in 12 seconds (565068K 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 24858031 spots for /home/okishinya/chipatlas/results/sacCer3/SRX079679/SRR292350.sra Written 24858031 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: 00:15:02 24858031 reads; of these: 24858031 (100.00%) were paired; of these: 11026007 (44.36%) aligned concordantly 0 times 10482108 (42.17%) aligned concordantly exactly 1 time 3349916 (13.48%) aligned concordantly >1 times ---- 11026007 pairs aligned concordantly 0 times; of these: 1857394 (16.85%) aligned discordantly 1 time ---- 9168613 pairs aligned 0 times concordantly or discordantly; of these: 18337226 mates make up the pairs; of these: 14529510 (79.24%) aligned 0 times 945890 (5.16%) aligned exactly 1 time 2861826 (15.61%) aligned >1 times 70.78% overall alignment rate Time searching: 00:15:02 Overall time: 00:15:02 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] 4768034 / 15261178 = 0.3124 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 04:44:59: # Command line: callpeak -t SRX079679.bam -f BAM -g 12100000 -n SRX079679.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX079679.20 # format = BAM # ChIP-seq file = ['SRX079679.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 04:44:59: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:44:59: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:44:59: # Command line: callpeak -t SRX079679.bam -f BAM -g 12100000 -n SRX079679.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX079679.05 # format = BAM # ChIP-seq file = ['SRX079679.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 04:44:59: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:44:59: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:44:59: # Command line: callpeak -t SRX079679.bam -f BAM -g 12100000 -n SRX079679.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX079679.10 # format = BAM # ChIP-seq file = ['SRX079679.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 04:44:59: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:44:59: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:45:06: 1000000 INFO @ Wed, 28 Jun 2017 04:45:06: 1000000 INFO @ Wed, 28 Jun 2017 04:45:06: 1000000 INFO @ Wed, 28 Jun 2017 04:45:13: 2000000 INFO @ Wed, 28 Jun 2017 04:45:13: 2000000 INFO @ Wed, 28 Jun 2017 04:45:13: 2000000 INFO @ Wed, 28 Jun 2017 04:45:20: 3000000 INFO @ Wed, 28 Jun 2017 04:45:20: 3000000 INFO @ Wed, 28 Jun 2017 04:45:20: 3000000 INFO @ Wed, 28 Jun 2017 04:45:27: 4000000 INFO @ Wed, 28 Jun 2017 04:45:27: 4000000 INFO @ Wed, 28 Jun 2017 04:45:27: 4000000 INFO @ Wed, 28 Jun 2017 04:45:35: 5000000 INFO @ Wed, 28 Jun 2017 04:45:35: 5000000 INFO @ Wed, 28 Jun 2017 04:45:35: 5000000 INFO @ Wed, 28 Jun 2017 04:45:42: 6000000 INFO @ Wed, 28 Jun 2017 04:45:42: 6000000 INFO @ Wed, 28 Jun 2017 04:45:42: 6000000 INFO @ Wed, 28 Jun 2017 04:45:49: 7000000 INFO @ Wed, 28 Jun 2017 04:45:49: 7000000 INFO @ Wed, 28 Jun 2017 04:45:49: 7000000 INFO @ Wed, 28 Jun 2017 04:45:56: 8000000 INFO @ Wed, 28 Jun 2017 04:45:56: 8000000 INFO @ Wed, 28 Jun 2017 04:45:56: 8000000 INFO @ Wed, 28 Jun 2017 04:46:03: 9000000 INFO @ Wed, 28 Jun 2017 04:46:03: 9000000 INFO @ Wed, 28 Jun 2017 04:46:03: 9000000 INFO @ Wed, 28 Jun 2017 04:46:10: 10000000 INFO @ Wed, 28 Jun 2017 04:46:10: 10000000 INFO @ Wed, 28 Jun 2017 04:46:10: 10000000 INFO @ Wed, 28 Jun 2017 04:46:17: 11000000 INFO @ Wed, 28 Jun 2017 04:46:17: 11000000 INFO @ Wed, 28 Jun 2017 04:46:17: 11000000 INFO @ Wed, 28 Jun 2017 04:46:24: 12000000 INFO @ Wed, 28 Jun 2017 04:46:24: 12000000 INFO @ Wed, 28 Jun 2017 04:46:24: 12000000 INFO @ Wed, 28 Jun 2017 04:46:32: 13000000 INFO @ Wed, 28 Jun 2017 04:46:32: 13000000 INFO @ Wed, 28 Jun 2017 04:46:32: 13000000 INFO @ Wed, 28 Jun 2017 04:46:39: 14000000 INFO @ Wed, 28 Jun 2017 04:46:39: 14000000 INFO @ Wed, 28 Jun 2017 04:46:40: 14000000 INFO @ Wed, 28 Jun 2017 04:46:46: 15000000 INFO @ Wed, 28 Jun 2017 04:46:46: 15000000 INFO @ Wed, 28 Jun 2017 04:46:47: 15000000 INFO @ Wed, 28 Jun 2017 04:46:53: 16000000 INFO @ Wed, 28 Jun 2017 04:46:53: 16000000 INFO @ Wed, 28 Jun 2017 04:46:54: 16000000 INFO @ Wed, 28 Jun 2017 04:47:00: 17000000 INFO @ Wed, 28 Jun 2017 04:47:01: 17000000 INFO @ Wed, 28 Jun 2017 04:47:01: 17000000 INFO @ Wed, 28 Jun 2017 04:47:07: 18000000 INFO @ Wed, 28 Jun 2017 04:47:08: 18000000 INFO @ Wed, 28 Jun 2017 04:47:09: 18000000 INFO @ Wed, 28 Jun 2017 04:47:15: 19000000 INFO @ Wed, 28 Jun 2017 04:47:16: 19000000 INFO @ Wed, 28 Jun 2017 04:47:17: 19000000 INFO @ Wed, 28 Jun 2017 04:47:22: 20000000 INFO @ Wed, 28 Jun 2017 04:47:24: 20000000 INFO @ Wed, 28 Jun 2017 04:47:25: 20000000 INFO @ Wed, 28 Jun 2017 04:47:30: 21000000 INFO @ Wed, 28 Jun 2017 04:47:33: 21000000 INFO @ Wed, 28 Jun 2017 04:47:34: 21000000 INFO @ Wed, 28 Jun 2017 04:47:39: 22000000 INFO @ Wed, 28 Jun 2017 04:47:42: 22000000 INFO @ Wed, 28 Jun 2017 04:47:44: 22000000 INFO @ Wed, 28 Jun 2017 04:47:48: 23000000 INFO @ Wed, 28 Jun 2017 04:47:52: 23000000 INFO @ Wed, 28 Jun 2017 04:47:53: 23000000 INFO @ Wed, 28 Jun 2017 04:47:56: 24000000 INFO @ Wed, 28 Jun 2017 04:48:01: 24000000 INFO @ Wed, 28 Jun 2017 04:48:03: 24000000 INFO @ Wed, 28 Jun 2017 04:48:05: 25000000 INFO @ Wed, 28 Jun 2017 04:48:10: #1 tag size is determined as 36 bps INFO @ Wed, 28 Jun 2017 04:48:10: #1 tag size = 36 INFO @ Wed, 28 Jun 2017 04:48:10: #1 total tags in treatment: 9914041 INFO @ Wed, 28 Jun 2017 04:48:10: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:48:10: #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 04:48:10: 25000000 INFO @ Wed, 28 Jun 2017 04:48:10: #1 tags after filtering in treatment: 5110988 INFO @ Wed, 28 Jun 2017 04:48:10: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 28 Jun 2017 04:48:10: #1 finished! INFO @ Wed, 28 Jun 2017 04:48:10: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:48:10: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:48:10: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:48:10: 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, 28 Jun 2017 04:48:10: Process for pairing-model is terminated! cat: SRX079679.10_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 `SRX079679.10_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 `SRX079679.10_*.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 `SRX079679.10_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 04:48:11: 25000000 INFO @ Wed, 28 Jun 2017 04:48:14: #1 tag size is determined as 36 bps INFO @ Wed, 28 Jun 2017 04:48:14: #1 tag size = 36 INFO @ Wed, 28 Jun 2017 04:48:14: #1 total tags in treatment: 9914041 INFO @ Wed, 28 Jun 2017 04:48:14: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:48:14: #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 04:48:14: #1 tags after filtering in treatment: 5110988 INFO @ Wed, 28 Jun 2017 04:48:14: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 28 Jun 2017 04:48:14: #1 finished! INFO @ Wed, 28 Jun 2017 04:48:14: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:48:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:48:14: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:48:14: 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, 28 Jun 2017 04:48:14: Process for pairing-model is terminated! cat: SRX079679.05_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 `SRX079679.05_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 `SRX079679.05_*.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 `SRX079679.05_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 04:48:15: #1 tag size is determined as 36 bps INFO @ Wed, 28 Jun 2017 04:48:15: #1 tag size = 36 INFO @ Wed, 28 Jun 2017 04:48:15: #1 total tags in treatment: 9914041 INFO @ Wed, 28 Jun 2017 04:48:15: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:48:15: #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 04:48:15: #1 tags after filtering in treatment: 5110988 INFO @ Wed, 28 Jun 2017 04:48:15: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 28 Jun 2017 04:48:15: #1 finished! INFO @ Wed, 28 Jun 2017 04:48:15: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:48:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:48:15: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:48:15: 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, 28 Jun 2017 04:48:15: Process for pairing-model is terminated! cat: SRX079679.20_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 `SRX079679.20_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 `SRX079679.20_*.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 `SRX079679.20_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。