Job ID = 9302973 sra ファイルのダウンロード中... Completed: 867263K bytes transferred in 21 seconds (327401K 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 15975200 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2961330/SRR5761579.sra Written 15975200 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: 00:11:45 15975200 reads; of these: 15975200 (100.00%) were paired; of these: 1050194 (6.57%) aligned concordantly 0 times 13938800 (87.25%) aligned concordantly exactly 1 time 986206 (6.17%) aligned concordantly >1 times ---- 1050194 pairs aligned concordantly 0 times; of these: 248078 (23.62%) aligned discordantly 1 time ---- 802116 pairs aligned 0 times concordantly or discordantly; of these: 1604232 mates make up the pairs; of these: 1236997 (77.11%) aligned 0 times 237305 (14.79%) aligned exactly 1 time 129930 (8.10%) aligned >1 times 96.13% overall alignment rate Time searching: 00:11:45 Overall time: 00:11:45 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 16 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] 1745815 / 14952593 = 0.1168 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 @ Fri, 28 Jul 2017 11:59:36: # Command line: callpeak -t SRX2961330.bam -f BAM -g 12100000 -n SRX2961330.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2961330.10 # format = BAM # ChIP-seq file = ['SRX2961330.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 @ Fri, 28 Jul 2017 11:59:36: # Command line: callpeak -t SRX2961330.bam -f BAM -g 12100000 -n SRX2961330.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2961330.20 # format = BAM # ChIP-seq file = ['SRX2961330.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 @ Fri, 28 Jul 2017 11:59:36: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:59:36: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:59:36: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:59:36: # Command line: callpeak -t SRX2961330.bam -f BAM -g 12100000 -n SRX2961330.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2961330.05 # format = BAM # ChIP-seq file = ['SRX2961330.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 @ Fri, 28 Jul 2017 11:59:36: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:59:36: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:59:36: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:59:42: 1000000 INFO @ Fri, 28 Jul 2017 11:59:42: 1000000 INFO @ Fri, 28 Jul 2017 11:59:42: 1000000 INFO @ Fri, 28 Jul 2017 11:59:48: 2000000 INFO @ Fri, 28 Jul 2017 11:59:48: 2000000 INFO @ Fri, 28 Jul 2017 11:59:49: 2000000 INFO @ Fri, 28 Jul 2017 11:59:55: 3000000 INFO @ Fri, 28 Jul 2017 11:59:55: 3000000 INFO @ Fri, 28 Jul 2017 11:59:57: 3000000 INFO @ Fri, 28 Jul 2017 12:00:01: 4000000 INFO @ Fri, 28 Jul 2017 12:00:02: 4000000 INFO @ Fri, 28 Jul 2017 12:00:04: 4000000 INFO @ Fri, 28 Jul 2017 12:00:08: 5000000 INFO @ Fri, 28 Jul 2017 12:00:08: 5000000 INFO @ Fri, 28 Jul 2017 12:00:11: 5000000 INFO @ Fri, 28 Jul 2017 12:00:15: 6000000 INFO @ Fri, 28 Jul 2017 12:00:15: 6000000 INFO @ Fri, 28 Jul 2017 12:00:18: 6000000 INFO @ Fri, 28 Jul 2017 12:00:21: 7000000 INFO @ Fri, 28 Jul 2017 12:00:22: 7000000 INFO @ Fri, 28 Jul 2017 12:00:25: 7000000 INFO @ Fri, 28 Jul 2017 12:00:28: 8000000 INFO @ Fri, 28 Jul 2017 12:00:28: 8000000 INFO @ Fri, 28 Jul 2017 12:00:33: 8000000 INFO @ Fri, 28 Jul 2017 12:00:35: 9000000 INFO @ Fri, 28 Jul 2017 12:00:35: 9000000 INFO @ Fri, 28 Jul 2017 12:00:40: 9000000 INFO @ Fri, 28 Jul 2017 12:00:41: 10000000 INFO @ Fri, 28 Jul 2017 12:00:42: 10000000 INFO @ Fri, 28 Jul 2017 12:00:47: 10000000 INFO @ Fri, 28 Jul 2017 12:00:48: 11000000 INFO @ Fri, 28 Jul 2017 12:00:48: 11000000 INFO @ Fri, 28 Jul 2017 12:00:54: 11000000 INFO @ Fri, 28 Jul 2017 12:00:55: 12000000 INFO @ Fri, 28 Jul 2017 12:00:55: 12000000 INFO @ Fri, 28 Jul 2017 12:01:02: 13000000 INFO @ Fri, 28 Jul 2017 12:01:02: 12000000 INFO @ Fri, 28 Jul 2017 12:01:02: 13000000 INFO @ Fri, 28 Jul 2017 12:01:09: 14000000 INFO @ Fri, 28 Jul 2017 12:01:09: 14000000 INFO @ Fri, 28 Jul 2017 12:01:09: 13000000 INFO @ Fri, 28 Jul 2017 12:01:15: 15000000 INFO @ Fri, 28 Jul 2017 12:01:16: 15000000 INFO @ Fri, 28 Jul 2017 12:01:16: 14000000 INFO @ Fri, 28 Jul 2017 12:01:22: 16000000 INFO @ Fri, 28 Jul 2017 12:01:23: 16000000 INFO @ Fri, 28 Jul 2017 12:01:24: 15000000 INFO @ Fri, 28 Jul 2017 12:01:29: 17000000 INFO @ Fri, 28 Jul 2017 12:01:30: 17000000 INFO @ Fri, 28 Jul 2017 12:01:31: 16000000 INFO @ Fri, 28 Jul 2017 12:01:36: 18000000 INFO @ Fri, 28 Jul 2017 12:01:37: 18000000 INFO @ Fri, 28 Jul 2017 12:01:39: 17000000 INFO @ Fri, 28 Jul 2017 12:01:43: 19000000 INFO @ Fri, 28 Jul 2017 12:01:44: 19000000 INFO @ Fri, 28 Jul 2017 12:01:46: 18000000 INFO @ Fri, 28 Jul 2017 12:01:50: 20000000 INFO @ Fri, 28 Jul 2017 12:01:51: 20000000 INFO @ Fri, 28 Jul 2017 12:01:54: 19000000 INFO @ Fri, 28 Jul 2017 12:01:57: 21000000 INFO @ Fri, 28 Jul 2017 12:01:58: 21000000 INFO @ Fri, 28 Jul 2017 12:02:01: 20000000 INFO @ Fri, 28 Jul 2017 12:02:04: 22000000 INFO @ Fri, 28 Jul 2017 12:02:05: 22000000 INFO @ Fri, 28 Jul 2017 12:02:09: 21000000 INFO @ Fri, 28 Jul 2017 12:02:11: 23000000 INFO @ Fri, 28 Jul 2017 12:02:12: 23000000 INFO @ Fri, 28 Jul 2017 12:02:16: 22000000 INFO @ Fri, 28 Jul 2017 12:02:18: 24000000 INFO @ Fri, 28 Jul 2017 12:02:19: 24000000 INFO @ Fri, 28 Jul 2017 12:02:23: 23000000 INFO @ Fri, 28 Jul 2017 12:02:25: 25000000 INFO @ Fri, 28 Jul 2017 12:02:26: 25000000 INFO @ Fri, 28 Jul 2017 12:02:31: 24000000 INFO @ Fri, 28 Jul 2017 12:02:32: 26000000 INFO @ Fri, 28 Jul 2017 12:02:33: 26000000 INFO @ Fri, 28 Jul 2017 12:02:38: 25000000 INFO @ Fri, 28 Jul 2017 12:02:39: 27000000 INFO @ Fri, 28 Jul 2017 12:02:40: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 12:02:40: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 12:02:40: #1 total tags in treatment: 13179761 INFO @ Fri, 28 Jul 2017 12:02:40: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 12:02:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 12:02:40: 27000000 INFO @ Fri, 28 Jul 2017 12:02:40: #1 tags after filtering in treatment: 5954212 INFO @ Fri, 28 Jul 2017 12:02:40: #1 Redundant rate of treatment: 0.55 INFO @ Fri, 28 Jul 2017 12:02:40: #1 finished! INFO @ Fri, 28 Jul 2017 12:02:40: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 12:02:40: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 12:02:41: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 12:02:41: 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 @ Fri, 28 Jul 2017 12:02:41: Process for pairing-model is terminated! cat: SRX2961330.05_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 `SRX2961330.05_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 `SRX2961330.05_*.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 `SRX2961330.05_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 @ Fri, 28 Jul 2017 12:02:42: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 12:02:42: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 12:02:42: #1 total tags in treatment: 13179761 INFO @ Fri, 28 Jul 2017 12:02:42: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 12:02:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 12:02:42: #1 tags after filtering in treatment: 5954212 INFO @ Fri, 28 Jul 2017 12:02:42: #1 Redundant rate of treatment: 0.55 INFO @ Fri, 28 Jul 2017 12:02:42: #1 finished! INFO @ Fri, 28 Jul 2017 12:02:42: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 12:02:42: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 12:02:42: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 12:02:42: 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 @ Fri, 28 Jul 2017 12:02:42: Process for pairing-model is terminated! cat: SRX2961330.10_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 `SRX2961330.10_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 `SRX2961330.10_*.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 `SRX2961330.10_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 @ Fri, 28 Jul 2017 12:02:45: 26000000 INFO @ Fri, 28 Jul 2017 12:02:51: 27000000 INFO @ Fri, 28 Jul 2017 12:02:52: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 12:02:52: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 12:02:52: #1 total tags in treatment: 13179761 INFO @ Fri, 28 Jul 2017 12:02:52: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 12:02:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 12:02:53: #1 tags after filtering in treatment: 5954212 INFO @ Fri, 28 Jul 2017 12:02:53: #1 Redundant rate of treatment: 0.55 INFO @ Fri, 28 Jul 2017 12:02:53: #1 finished! INFO @ Fri, 28 Jul 2017 12:02:53: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 12:02:53: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 12:02:53: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 12:02:53: 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 @ Fri, 28 Jul 2017 12:02:53: Process for pairing-model is terminated! cat: SRX2961330.20_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 `SRX2961330.20_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 `SRX2961330.20_*.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 `SRX2961330.20_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。