Job ID = 9161695 sra ファイルのダウンロード中... Completed: 852166K bytes transferred in 13 seconds (534512K 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 24228837 spots for /home/okishinya/chipatlas/results/sacCer3/SRX079678/SRR292349.sra Written 24228837 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: 00:14:33 24228837 reads; of these: 24228837 (100.00%) were paired; of these: 10445644 (43.11%) aligned concordantly 0 times 10884929 (44.93%) aligned concordantly exactly 1 time 2898264 (11.96%) aligned concordantly >1 times ---- 10445644 pairs aligned concordantly 0 times; of these: 1675673 (16.04%) aligned discordantly 1 time ---- 8769971 pairs aligned 0 times concordantly or discordantly; of these: 17539942 mates make up the pairs; of these: 14103306 (80.41%) aligned 0 times 922132 (5.26%) aligned exactly 1 time 2514504 (14.34%) aligned >1 times 70.90% overall alignment rate Time searching: 00:14:33 Overall time: 00:14:33 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] 4261119 / 15100896 = 0.2822 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 04:44:00: # Command line: callpeak -t SRX079678.bam -f BAM -g 12100000 -n SRX079678.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX079678.05 # format = BAM # ChIP-seq file = ['SRX079678.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 04:44:00: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:44:00: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:44:00: # Command line: callpeak -t SRX079678.bam -f BAM -g 12100000 -n SRX079678.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX079678.20 # format = BAM # ChIP-seq file = ['SRX079678.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 04:44:00: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:44:00: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:44:00: # Command line: callpeak -t SRX079678.bam -f BAM -g 12100000 -n SRX079678.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX079678.10 # format = BAM # ChIP-seq file = ['SRX079678.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 04:44:00: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:44:00: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:44:05: 1000000 INFO @ Wed, 28 Jun 2017 04:44:05: 1000000 INFO @ Wed, 28 Jun 2017 04:44:05: 1000000 INFO @ Wed, 28 Jun 2017 04:44:10: 2000000 INFO @ Wed, 28 Jun 2017 04:44:10: 2000000 INFO @ Wed, 28 Jun 2017 04:44:10: 2000000 INFO @ Wed, 28 Jun 2017 04:44:15: 3000000 INFO @ Wed, 28 Jun 2017 04:44:15: 3000000 INFO @ Wed, 28 Jun 2017 04:44:15: 3000000 INFO @ Wed, 28 Jun 2017 04:44:20: 4000000 INFO @ Wed, 28 Jun 2017 04:44:22: 4000000 INFO @ Wed, 28 Jun 2017 04:44:22: 4000000 INFO @ Wed, 28 Jun 2017 04:44:26: 5000000 INFO @ Wed, 28 Jun 2017 04:44:29: 5000000 INFO @ Wed, 28 Jun 2017 04:44:29: 5000000 INFO @ Wed, 28 Jun 2017 04:44:32: 6000000 INFO @ Wed, 28 Jun 2017 04:44:36: 6000000 INFO @ Wed, 28 Jun 2017 04:44:36: 6000000 INFO @ Wed, 28 Jun 2017 04:44:37: 7000000 INFO @ Wed, 28 Jun 2017 04:44:42: 7000000 INFO @ Wed, 28 Jun 2017 04:44:42: 7000000 INFO @ Wed, 28 Jun 2017 04:44:43: 8000000 INFO @ Wed, 28 Jun 2017 04:44:49: 9000000 INFO @ Wed, 28 Jun 2017 04:44:49: 8000000 INFO @ Wed, 28 Jun 2017 04:44:49: 8000000 INFO @ Wed, 28 Jun 2017 04:44:55: 10000000 INFO @ Wed, 28 Jun 2017 04:44:56: 9000000 INFO @ Wed, 28 Jun 2017 04:44:56: 9000000 INFO @ Wed, 28 Jun 2017 04:45:01: 11000000 INFO @ Wed, 28 Jun 2017 04:45:03: 10000000 INFO @ Wed, 28 Jun 2017 04:45:03: 10000000 INFO @ Wed, 28 Jun 2017 04:45:07: 12000000 INFO @ Wed, 28 Jun 2017 04:45:09: 11000000 INFO @ Wed, 28 Jun 2017 04:45:09: 11000000 INFO @ Wed, 28 Jun 2017 04:45:13: 13000000 INFO @ Wed, 28 Jun 2017 04:45:15: 12000000 INFO @ Wed, 28 Jun 2017 04:45:15: 12000000 INFO @ Wed, 28 Jun 2017 04:45:20: 14000000 INFO @ Wed, 28 Jun 2017 04:45:22: 13000000 INFO @ Wed, 28 Jun 2017 04:45:22: 13000000 INFO @ Wed, 28 Jun 2017 04:45:26: 15000000 INFO @ Wed, 28 Jun 2017 04:45:28: 14000000 INFO @ Wed, 28 Jun 2017 04:45:28: 14000000 INFO @ Wed, 28 Jun 2017 04:45:31: 16000000 INFO @ Wed, 28 Jun 2017 04:45:34: 15000000 INFO @ Wed, 28 Jun 2017 04:45:34: 15000000 INFO @ Wed, 28 Jun 2017 04:45:37: 17000000 INFO @ Wed, 28 Jun 2017 04:45:39: 16000000 INFO @ Wed, 28 Jun 2017 04:45:39: 16000000 INFO @ Wed, 28 Jun 2017 04:45:43: 18000000 INFO @ Wed, 28 Jun 2017 04:45:45: 17000000 INFO @ Wed, 28 Jun 2017 04:45:45: 17000000 INFO @ Wed, 28 Jun 2017 04:45:50: 19000000 INFO @ Wed, 28 Jun 2017 04:45:51: 18000000 INFO @ Wed, 28 Jun 2017 04:45:51: 18000000 INFO @ Wed, 28 Jun 2017 04:45:58: 20000000 INFO @ Wed, 28 Jun 2017 04:45:58: 19000000 INFO @ Wed, 28 Jun 2017 04:45:58: 19000000 INFO @ Wed, 28 Jun 2017 04:46:04: 20000000 INFO @ Wed, 28 Jun 2017 04:46:04: 20000000 INFO @ Wed, 28 Jun 2017 04:46:05: 21000000 INFO @ Wed, 28 Jun 2017 04:46:11: 21000000 INFO @ Wed, 28 Jun 2017 04:46:11: 21000000 INFO @ Wed, 28 Jun 2017 04:46:12: 22000000 INFO @ Wed, 28 Jun 2017 04:46:18: 22000000 INFO @ Wed, 28 Jun 2017 04:46:18: 22000000 INFO @ Wed, 28 Jun 2017 04:46:20: 23000000 INFO @ Wed, 28 Jun 2017 04:46:24: 23000000 INFO @ Wed, 28 Jun 2017 04:46:24: 23000000 INFO @ Wed, 28 Jun 2017 04:46:27: 24000000 INFO @ Wed, 28 Jun 2017 04:46:31: 24000000 INFO @ Wed, 28 Jun 2017 04:46:31: 24000000 INFO @ Wed, 28 Jun 2017 04:46:35: 25000000 INFO @ Wed, 28 Jun 2017 04:46:38: 25000000 INFO @ Wed, 28 Jun 2017 04:46:38: 25000000 INFO @ Wed, 28 Jun 2017 04:46:41: #1 tag size is determined as 36 bps INFO @ Wed, 28 Jun 2017 04:46:41: #1 tag size = 36 INFO @ Wed, 28 Jun 2017 04:46:41: #1 total tags in treatment: 10299363 INFO @ Wed, 28 Jun 2017 04:46:41: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:46:41: #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 04:46:42: #1 tags after filtering in treatment: 5249735 INFO @ Wed, 28 Jun 2017 04:46:42: #1 Redundant rate of treatment: 0.49 INFO @ Wed, 28 Jun 2017 04:46:42: #1 finished! INFO @ Wed, 28 Jun 2017 04:46:42: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:46:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:46:42: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:46:42: 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, 28 Jun 2017 04:46:42: Process for pairing-model is terminated! cat: SRX079678.10_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 `SRX079678.10_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 `SRX079678.10_*.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 `SRX079678.10_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 04:46:43: #1 tag size is determined as 36 bps INFO @ Wed, 28 Jun 2017 04:46:43: #1 tag size = 36 INFO @ Wed, 28 Jun 2017 04:46:43: #1 total tags in treatment: 10299363 INFO @ Wed, 28 Jun 2017 04:46:43: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:46:43: #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 04:46:43: #1 tag size is determined as 36 bps INFO @ Wed, 28 Jun 2017 04:46:43: #1 tag size = 36 INFO @ Wed, 28 Jun 2017 04:46:43: #1 total tags in treatment: 10299363 INFO @ Wed, 28 Jun 2017 04:46:43: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:46:43: #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 04:46:43: #1 tags after filtering in treatment: 5249735 INFO @ Wed, 28 Jun 2017 04:46:43: #1 tags after filtering in treatment: 5249735 INFO @ Wed, 28 Jun 2017 04:46:43: #1 Redundant rate of treatment: 0.49 INFO @ Wed, 28 Jun 2017 04:46:43: #1 Redundant rate of treatment: 0.49 INFO @ Wed, 28 Jun 2017 04:46:43: #1 finished! INFO @ Wed, 28 Jun 2017 04:46:43: #1 finished! INFO @ Wed, 28 Jun 2017 04:46:43: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:46:43: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:46:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:46:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:46:44: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:46:44: 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 04:46:44: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 04:46:44: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:46:44: 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 04:46:44: Process for pairing-model is terminated! cat: SRX079678.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX079678.05_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX079678.20_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 `SRX079678.05_model.r'rm: cannot remove `SRX079678.20_*.xls': そのようなファイルやディレクトリはありません : 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 `SRX079678.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX079678.05_*.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 `SRX079678.05_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 CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。