Job ID = 9161693 sra ファイルのダウンロード中... Completed: 981225K bytes transferred in 13 seconds (593317K 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 26805897 spots for /home/okishinya/chipatlas/results/sacCer3/SRX079676/SRR292347.sra Written 26805897 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: 00:16:06 26805897 reads; of these: 26805897 (100.00%) were paired; of these: 12711936 (47.42%) aligned concordantly 0 times 11183723 (41.72%) aligned concordantly exactly 1 time 2910238 (10.86%) aligned concordantly >1 times ---- 12711936 pairs aligned concordantly 0 times; of these: 1976466 (15.55%) aligned discordantly 1 time ---- 10735470 pairs aligned 0 times concordantly or discordantly; of these: 21470940 mates make up the pairs; of these: 17134672 (79.80%) aligned 0 times 1128593 (5.26%) aligned exactly 1 time 3207675 (14.94%) aligned >1 times 68.04% overall alignment rate Time searching: 00:16:06 Overall time: 00:16:06 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] 4365882 / 15653157 = 0.2789 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 04:46:26: # Command line: callpeak -t SRX079676.bam -f BAM -g 12100000 -n SRX079676.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX079676.20 # format = BAM # ChIP-seq file = ['SRX079676.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 04:46:26: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:46:26: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:46:26: # Command line: callpeak -t SRX079676.bam -f BAM -g 12100000 -n SRX079676.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX079676.05 # format = BAM # ChIP-seq file = ['SRX079676.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 04:46:26: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:46:26: # Command line: callpeak -t SRX079676.bam -f BAM -g 12100000 -n SRX079676.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX079676.10 # format = BAM # ChIP-seq file = ['SRX079676.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 04:46:26: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:46:26: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:46:26: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:46:31: 1000000 INFO @ Wed, 28 Jun 2017 04:46:31: 1000000 INFO @ Wed, 28 Jun 2017 04:46:31: 1000000 INFO @ Wed, 28 Jun 2017 04:46:36: 2000000 INFO @ Wed, 28 Jun 2017 04:46:36: 2000000 INFO @ Wed, 28 Jun 2017 04:46:36: 2000000 INFO @ Wed, 28 Jun 2017 04:46:41: 3000000 INFO @ Wed, 28 Jun 2017 04:46:41: 3000000 INFO @ Wed, 28 Jun 2017 04:46:41: 3000000 INFO @ Wed, 28 Jun 2017 04:46:46: 4000000 INFO @ Wed, 28 Jun 2017 04:46:46: 4000000 INFO @ Wed, 28 Jun 2017 04:46:47: 4000000 INFO @ Wed, 28 Jun 2017 04:46:51: 5000000 INFO @ Wed, 28 Jun 2017 04:46:52: 5000000 INFO @ Wed, 28 Jun 2017 04:46:52: 5000000 INFO @ Wed, 28 Jun 2017 04:46:56: 6000000 INFO @ Wed, 28 Jun 2017 04:46:57: 6000000 INFO @ Wed, 28 Jun 2017 04:46:57: 6000000 INFO @ Wed, 28 Jun 2017 04:47:01: 7000000 INFO @ Wed, 28 Jun 2017 04:47:02: 7000000 INFO @ Wed, 28 Jun 2017 04:47:02: 7000000 INFO @ Wed, 28 Jun 2017 04:47:06: 8000000 INFO @ Wed, 28 Jun 2017 04:47:08: 8000000 INFO @ Wed, 28 Jun 2017 04:47:08: 8000000 INFO @ Wed, 28 Jun 2017 04:47:11: 9000000 INFO @ Wed, 28 Jun 2017 04:47:13: 9000000 INFO @ Wed, 28 Jun 2017 04:47:13: 9000000 INFO @ Wed, 28 Jun 2017 04:47:16: 10000000 INFO @ Wed, 28 Jun 2017 04:47:18: 10000000 INFO @ Wed, 28 Jun 2017 04:47:18: 10000000 INFO @ Wed, 28 Jun 2017 04:47:21: 11000000 INFO @ Wed, 28 Jun 2017 04:47:24: 11000000 INFO @ Wed, 28 Jun 2017 04:47:24: 11000000 INFO @ Wed, 28 Jun 2017 04:47:26: 12000000 INFO @ Wed, 28 Jun 2017 04:47:29: 12000000 INFO @ Wed, 28 Jun 2017 04:47:29: 12000000 INFO @ Wed, 28 Jun 2017 04:47:31: 13000000 INFO @ Wed, 28 Jun 2017 04:47:34: 13000000 INFO @ Wed, 28 Jun 2017 04:47:34: 13000000 INFO @ Wed, 28 Jun 2017 04:47:36: 14000000 INFO @ Wed, 28 Jun 2017 04:47:39: 14000000 INFO @ Wed, 28 Jun 2017 04:47:39: 14000000 INFO @ Wed, 28 Jun 2017 04:47:41: 15000000 INFO @ Wed, 28 Jun 2017 04:47:45: 15000000 INFO @ Wed, 28 Jun 2017 04:47:45: 15000000 INFO @ Wed, 28 Jun 2017 04:47:46: 16000000 INFO @ Wed, 28 Jun 2017 04:47:50: 16000000 INFO @ Wed, 28 Jun 2017 04:47:50: 16000000 INFO @ Wed, 28 Jun 2017 04:47:50: 17000000 INFO @ Wed, 28 Jun 2017 04:47:54: 17000000 INFO @ Wed, 28 Jun 2017 04:47:54: 17000000 INFO @ Wed, 28 Jun 2017 04:47:55: 18000000 INFO @ Wed, 28 Jun 2017 04:47:59: 19000000 INFO @ Wed, 28 Jun 2017 04:47:59: 18000000 INFO @ Wed, 28 Jun 2017 04:47:59: 18000000 INFO @ Wed, 28 Jun 2017 04:48:04: 19000000 INFO @ Wed, 28 Jun 2017 04:48:04: 19000000 INFO @ Wed, 28 Jun 2017 04:48:04: 20000000 INFO @ Wed, 28 Jun 2017 04:48:09: 21000000 INFO @ Wed, 28 Jun 2017 04:48:09: 20000000 INFO @ Wed, 28 Jun 2017 04:48:09: 20000000 INFO @ Wed, 28 Jun 2017 04:48:14: 22000000 INFO @ Wed, 28 Jun 2017 04:48:15: 21000000 INFO @ Wed, 28 Jun 2017 04:48:15: 21000000 INFO @ Wed, 28 Jun 2017 04:48:19: 23000000 INFO @ Wed, 28 Jun 2017 04:48:20: 22000000 INFO @ Wed, 28 Jun 2017 04:48:20: 22000000 INFO @ Wed, 28 Jun 2017 04:48:24: 24000000 INFO @ Wed, 28 Jun 2017 04:48:25: 23000000 INFO @ Wed, 28 Jun 2017 04:48:25: 23000000 INFO @ Wed, 28 Jun 2017 04:48:29: 25000000 INFO @ Wed, 28 Jun 2017 04:48:31: 24000000 INFO @ Wed, 28 Jun 2017 04:48:31: 24000000 INFO @ Wed, 28 Jun 2017 04:48:34: 26000000 INFO @ Wed, 28 Jun 2017 04:48:36: 25000000 INFO @ Wed, 28 Jun 2017 04:48:36: 25000000 INFO @ Wed, 28 Jun 2017 04:48:39: 27000000 INFO @ Wed, 28 Jun 2017 04:48:41: 26000000 INFO @ Wed, 28 Jun 2017 04:48:41: 26000000 INFO @ Wed, 28 Jun 2017 04:48:43: #1 tag size is determined as 36 bps INFO @ Wed, 28 Jun 2017 04:48:43: #1 tag size = 36 INFO @ Wed, 28 Jun 2017 04:48:43: #1 total tags in treatment: 10661510 INFO @ Wed, 28 Jun 2017 04:48:43: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:48:43: #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 04:48:44: #1 tags after filtering in treatment: 5384523 INFO @ Wed, 28 Jun 2017 04:48:44: #1 Redundant rate of treatment: 0.49 INFO @ Wed, 28 Jun 2017 04:48:44: #1 finished! INFO @ Wed, 28 Jun 2017 04:48:44: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:48:44: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:48:44: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:48:44: 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 04:48:44: Process for pairing-model is terminated! cat: SRX079676.05_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 `SRX079676.05_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 `SRX079676.05_*.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 `SRX079676.05_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 04:48:47: 27000000 INFO @ Wed, 28 Jun 2017 04:48:47: 27000000 INFO @ Wed, 28 Jun 2017 04:48:51: #1 tag size is determined as 36 bps INFO @ Wed, 28 Jun 2017 04:48:51: #1 tag size = 36 INFO @ Wed, 28 Jun 2017 04:48:51: #1 total tags in treatment: 10661510 INFO @ Wed, 28 Jun 2017 04:48:51: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:48:51: #1 tag size is determined as 36 bps INFO @ Wed, 28 Jun 2017 04:48:51: #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 04:48:51: #1 tag size = 36 INFO @ Wed, 28 Jun 2017 04:48:51: #1 total tags in treatment: 10661510 INFO @ Wed, 28 Jun 2017 04:48:51: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:48:51: #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 04:48:51: #1 tags after filtering in treatment: 5384523 INFO @ Wed, 28 Jun 2017 04:48:51: #1 Redundant rate of treatment: 0.49 INFO @ Wed, 28 Jun 2017 04:48:51: #1 finished! INFO @ Wed, 28 Jun 2017 04:48:51: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:48:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:48:51: #1 tags after filtering in treatment: 5384523 INFO @ Wed, 28 Jun 2017 04:48:51: #1 Redundant rate of treatment: 0.49 INFO @ Wed, 28 Jun 2017 04:48:51: #1 finished! INFO @ Wed, 28 Jun 2017 04:48:51: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:48:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:48:51: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:48:51: 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 04:48:51: Process for pairing-model is terminated! cat: SRX079676.10_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 `SRX079676.10_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 `SRX079676.10_*.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 `SRX079676.10_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 04:48:51: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:48:51: 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 04:48:51: Process for pairing-model is terminated! cat: SRX079676.20_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 `SRX079676.20_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 `SRX079676.20_*.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 `SRX079676.20_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。