Job ID = 9161776 sra ファイルのダウンロード中... Completed: 541101K bytes transferred in 8 seconds (547445K 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 12324158 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1044130/SRR2045650.sra Written 12324158 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: 00:10:35 12324158 reads; of these: 12324158 (100.00%) were paired; of these: 1035212 (8.40%) aligned concordantly 0 times 9637390 (78.20%) aligned concordantly exactly 1 time 1651556 (13.40%) aligned concordantly >1 times ---- 1035212 pairs aligned concordantly 0 times; of these: 507787 (49.05%) aligned discordantly 1 time ---- 527425 pairs aligned 0 times concordantly or discordantly; of these: 1054850 mates make up the pairs; of these: 627817 (59.52%) aligned 0 times 199199 (18.88%) aligned exactly 1 time 227834 (21.60%) aligned >1 times 97.45% overall alignment rate Time searching: 00:10:35 Overall time: 00:10:35 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] 806052 / 11683285 = 0.0690 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 04:50:43: # Command line: callpeak -t SRX1044130.bam -f BAM -g 12100000 -n SRX1044130.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1044130.20 # format = BAM # ChIP-seq file = ['SRX1044130.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 04:50:43: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:50:43: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:50:43: # Command line: callpeak -t SRX1044130.bam -f BAM -g 12100000 -n SRX1044130.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1044130.05 # format = BAM # ChIP-seq file = ['SRX1044130.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 04:50:43: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:50:43: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:50:43: # Command line: callpeak -t SRX1044130.bam -f BAM -g 12100000 -n SRX1044130.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1044130.10 # format = BAM # ChIP-seq file = ['SRX1044130.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 04:50:43: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:50:43: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:50:49: 1000000 INFO @ Wed, 28 Jun 2017 04:50:49: 1000000 INFO @ Wed, 28 Jun 2017 04:50:50: 1000000 INFO @ Wed, 28 Jun 2017 04:50:56: 2000000 INFO @ Wed, 28 Jun 2017 04:50:56: 2000000 INFO @ Wed, 28 Jun 2017 04:50:56: 2000000 INFO @ Wed, 28 Jun 2017 04:51:02: 3000000 INFO @ Wed, 28 Jun 2017 04:51:02: 3000000 INFO @ Wed, 28 Jun 2017 04:51:02: 3000000 INFO @ Wed, 28 Jun 2017 04:51:08: 4000000 INFO @ Wed, 28 Jun 2017 04:51:08: 4000000 INFO @ Wed, 28 Jun 2017 04:51:09: 4000000 INFO @ Wed, 28 Jun 2017 04:51:15: 5000000 INFO @ Wed, 28 Jun 2017 04:51:15: 5000000 INFO @ Wed, 28 Jun 2017 04:51:16: 5000000 INFO @ Wed, 28 Jun 2017 04:51:21: 6000000 INFO @ Wed, 28 Jun 2017 04:51:22: 6000000 INFO @ Wed, 28 Jun 2017 04:51:23: 6000000 INFO @ Wed, 28 Jun 2017 04:51:28: 7000000 INFO @ Wed, 28 Jun 2017 04:51:28: 7000000 INFO @ Wed, 28 Jun 2017 04:51:30: 7000000 INFO @ Wed, 28 Jun 2017 04:51:34: 8000000 INFO @ Wed, 28 Jun 2017 04:51:35: 8000000 INFO @ Wed, 28 Jun 2017 04:51:37: 8000000 INFO @ Wed, 28 Jun 2017 04:51:41: 9000000 INFO @ Wed, 28 Jun 2017 04:51:41: 9000000 INFO @ Wed, 28 Jun 2017 04:51:43: 9000000 INFO @ Wed, 28 Jun 2017 04:51:48: 10000000 INFO @ Wed, 28 Jun 2017 04:51:48: 10000000 INFO @ Wed, 28 Jun 2017 04:51:50: 10000000 INFO @ Wed, 28 Jun 2017 04:51:55: 11000000 INFO @ Wed, 28 Jun 2017 04:51:55: 11000000 INFO @ Wed, 28 Jun 2017 04:51:58: 11000000 INFO @ Wed, 28 Jun 2017 04:52:02: 12000000 INFO @ Wed, 28 Jun 2017 04:52:03: 12000000 INFO @ Wed, 28 Jun 2017 04:52:06: 12000000 INFO @ Wed, 28 Jun 2017 04:52:10: 13000000 INFO @ Wed, 28 Jun 2017 04:52:10: 13000000 INFO @ Wed, 28 Jun 2017 04:52:13: 13000000 INFO @ Wed, 28 Jun 2017 04:52:17: 14000000 INFO @ Wed, 28 Jun 2017 04:52:18: 14000000 INFO @ Wed, 28 Jun 2017 04:52:21: 14000000 INFO @ Wed, 28 Jun 2017 04:52:25: 15000000 INFO @ Wed, 28 Jun 2017 04:52:25: 15000000 INFO @ Wed, 28 Jun 2017 04:52:29: 15000000 INFO @ Wed, 28 Jun 2017 04:52:32: 16000000 INFO @ Wed, 28 Jun 2017 04:52:33: 16000000 INFO @ Wed, 28 Jun 2017 04:52:37: 16000000 INFO @ Wed, 28 Jun 2017 04:52:40: 17000000 INFO @ Wed, 28 Jun 2017 04:52:41: 17000000 INFO @ Wed, 28 Jun 2017 04:52:45: 17000000 INFO @ Wed, 28 Jun 2017 04:52:48: 18000000 INFO @ Wed, 28 Jun 2017 04:52:49: 18000000 INFO @ Wed, 28 Jun 2017 04:52:53: 18000000 INFO @ Wed, 28 Jun 2017 04:52:55: 19000000 INFO @ Wed, 28 Jun 2017 04:52:56: 19000000 INFO @ Wed, 28 Jun 2017 04:53:00: 19000000 INFO @ Wed, 28 Jun 2017 04:53:02: 20000000 INFO @ Wed, 28 Jun 2017 04:53:03: 20000000 INFO @ Wed, 28 Jun 2017 04:53:07: 20000000 INFO @ Wed, 28 Jun 2017 04:53:09: 21000000 INFO @ Wed, 28 Jun 2017 04:53:11: 21000000 INFO @ Wed, 28 Jun 2017 04:53:15: 21000000 INFO @ Wed, 28 Jun 2017 04:53:16: 22000000 INFO @ Wed, 28 Jun 2017 04:53:18: 22000000 INFO @ Wed, 28 Jun 2017 04:53:19: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:53:19: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:53:19: #1 total tags in treatment: 10497593 INFO @ Wed, 28 Jun 2017 04:53:19: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:53:19: #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 04:53:20: #1 tags after filtering in treatment: 7322628 INFO @ Wed, 28 Jun 2017 04:53:20: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 28 Jun 2017 04:53:20: #1 finished! INFO @ Wed, 28 Jun 2017 04:53:20: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:53:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:53:20: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:53:20: 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 04:53:20: Process for pairing-model is terminated! cat: SRX1044130.10_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 `SRX1044130.10_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 `SRX1044130.10_*.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 `SRX1044130.10_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 04:53:21: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:53:21: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:53:21: #1 total tags in treatment: 10497593 INFO @ Wed, 28 Jun 2017 04:53:21: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:53:21: #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 04:53:21: #1 tags after filtering in treatment: 7322628 INFO @ Wed, 28 Jun 2017 04:53:21: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 28 Jun 2017 04:53:21: #1 finished! INFO @ Wed, 28 Jun 2017 04:53:21: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:53:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:53:21: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:53:21: 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 04:53:21: Process for pairing-model is terminated! cat: SRX1044130.20_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 `SRX1044130.20_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 `SRX1044130.20_*.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 `SRX1044130.20_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, 28 Jun 2017 04:53:22: 22000000 INFO @ Wed, 28 Jun 2017 04:53:24: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:53:24: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:53:24: #1 total tags in treatment: 10497593 INFO @ Wed, 28 Jun 2017 04:53:24: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:53:24: #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 04:53:25: #1 tags after filtering in treatment: 7322628 INFO @ Wed, 28 Jun 2017 04:53:25: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 28 Jun 2017 04:53:25: #1 finished! INFO @ Wed, 28 Jun 2017 04:53:25: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:53:25: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:53:25: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:53:25: 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 04:53:25: Process for pairing-model is terminated! cat: SRX1044130.05_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 `SRX1044130.05_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 `SRX1044130.05_*.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 `SRX1044130.05_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。