Job ID = 9161785 sra ファイルのダウンロード中... Completed: 770005K bytes transferred in 12 seconds (499587K 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 12323860 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1044174/SRR2045655.sra Written 12323860 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: 00:09:58 12323860 reads; of these: 12323860 (100.00%) were paired; of these: 1082356 (8.78%) aligned concordantly 0 times 9304872 (75.50%) aligned concordantly exactly 1 time 1936632 (15.71%) aligned concordantly >1 times ---- 1082356 pairs aligned concordantly 0 times; of these: 318692 (29.44%) aligned discordantly 1 time ---- 763664 pairs aligned 0 times concordantly or discordantly; of these: 1527328 mates make up the pairs; of these: 1182705 (77.44%) aligned 0 times 147968 (9.69%) aligned exactly 1 time 196655 (12.88%) aligned >1 times 95.20% overall alignment rate Time searching: 00:09:58 Overall time: 00:09:58 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] 2823343 / 11413464 = 0.2474 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 04:50:52: # Command line: callpeak -t SRX1044174.bam -f BAM -g 12100000 -n SRX1044174.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1044174.05 # format = BAM # ChIP-seq file = ['SRX1044174.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 04:50:52: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:50:52: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:50:52: # Command line: callpeak -t SRX1044174.bam -f BAM -g 12100000 -n SRX1044174.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1044174.10 # format = BAM # ChIP-seq file = ['SRX1044174.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 04:50:52: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:50:52: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:50:52: # Command line: callpeak -t SRX1044174.bam -f BAM -g 12100000 -n SRX1044174.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1044174.20 # format = BAM # ChIP-seq file = ['SRX1044174.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 04:50:52: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:50:52: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:50:59: 1000000 INFO @ Wed, 28 Jun 2017 04:50:59: 1000000 INFO @ Wed, 28 Jun 2017 04:50:59: 1000000 INFO @ Wed, 28 Jun 2017 04:51:05: 2000000 INFO @ Wed, 28 Jun 2017 04:51:05: 2000000 INFO @ Wed, 28 Jun 2017 04:51:05: 2000000 INFO @ Wed, 28 Jun 2017 04:51:12: 3000000 INFO @ Wed, 28 Jun 2017 04:51:12: 3000000 INFO @ Wed, 28 Jun 2017 04:51:12: 3000000 INFO @ Wed, 28 Jun 2017 04:51:18: 4000000 INFO @ Wed, 28 Jun 2017 04:51:18: 4000000 INFO @ Wed, 28 Jun 2017 04:51:18: 4000000 INFO @ Wed, 28 Jun 2017 04:51:24: 5000000 INFO @ Wed, 28 Jun 2017 04:51:25: 5000000 INFO @ Wed, 28 Jun 2017 04:51:25: 5000000 INFO @ Wed, 28 Jun 2017 04:51:31: 6000000 INFO @ Wed, 28 Jun 2017 04:51:31: 6000000 INFO @ Wed, 28 Jun 2017 04:51:31: 6000000 INFO @ Wed, 28 Jun 2017 04:51:37: 7000000 INFO @ Wed, 28 Jun 2017 04:51:38: 7000000 INFO @ Wed, 28 Jun 2017 04:51:38: 7000000 INFO @ Wed, 28 Jun 2017 04:51:43: 8000000 INFO @ Wed, 28 Jun 2017 04:51:44: 8000000 INFO @ Wed, 28 Jun 2017 04:51:44: 8000000 INFO @ Wed, 28 Jun 2017 04:51:49: 9000000 INFO @ Wed, 28 Jun 2017 04:51:51: 9000000 INFO @ Wed, 28 Jun 2017 04:51:51: 9000000 INFO @ Wed, 28 Jun 2017 04:51:56: 10000000 INFO @ Wed, 28 Jun 2017 04:51:57: 10000000 INFO @ Wed, 28 Jun 2017 04:51:57: 10000000 INFO @ Wed, 28 Jun 2017 04:52:02: 11000000 INFO @ Wed, 28 Jun 2017 04:52:04: 11000000 INFO @ Wed, 28 Jun 2017 04:52:04: 11000000 INFO @ Wed, 28 Jun 2017 04:52:08: 12000000 INFO @ Wed, 28 Jun 2017 04:52:10: 12000000 INFO @ Wed, 28 Jun 2017 04:52:10: 12000000 INFO @ Wed, 28 Jun 2017 04:52:14: 13000000 INFO @ Wed, 28 Jun 2017 04:52:17: 13000000 INFO @ Wed, 28 Jun 2017 04:52:17: 13000000 INFO @ Wed, 28 Jun 2017 04:52:21: 14000000 INFO @ Wed, 28 Jun 2017 04:52:24: 14000000 INFO @ Wed, 28 Jun 2017 04:52:24: 14000000 INFO @ Wed, 28 Jun 2017 04:52:27: 15000000 INFO @ Wed, 28 Jun 2017 04:52:31: 15000000 INFO @ Wed, 28 Jun 2017 04:52:31: 15000000 INFO @ Wed, 28 Jun 2017 04:52:34: 16000000 INFO @ Wed, 28 Jun 2017 04:52:38: 16000000 INFO @ Wed, 28 Jun 2017 04:52:38: 16000000 INFO @ Wed, 28 Jun 2017 04:52:40: 17000000 INFO @ Wed, 28 Jun 2017 04:52:45: 17000000 INFO @ Wed, 28 Jun 2017 04:52:45: 17000000 INFO @ Wed, 28 Jun 2017 04:52:45: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:52:45: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:52:45: #1 total tags in treatment: 8468373 INFO @ Wed, 28 Jun 2017 04:52:45: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:52:45: #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 04:52:45: #1 tags after filtering in treatment: 6236696 INFO @ Wed, 28 Jun 2017 04:52:45: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 28 Jun 2017 04:52:45: #1 finished! INFO @ Wed, 28 Jun 2017 04:52:45: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:52:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:52:46: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:52:46: 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 04:52:46: Process for pairing-model is terminated! cat: SRX1044174.20_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 `SRX1044174.20_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 `SRX1044174.20_*.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 `SRX1044174.20_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 04:52:51: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:52:51: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:52:51: #1 total tags in treatment: 8468373 INFO @ Wed, 28 Jun 2017 04:52:51: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:52:51: #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 04:52:51: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:52:51: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:52:51: #1 total tags in treatment: 8468373 INFO @ Wed, 28 Jun 2017 04:52:51: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:52:51: #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 04:52:51: #1 tags after filtering in treatment: 6236696 INFO @ Wed, 28 Jun 2017 04:52:51: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 28 Jun 2017 04:52:51: #1 finished! INFO @ Wed, 28 Jun 2017 04:52:51: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:52:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:52:51: #1 tags after filtering in treatment: 6236696 INFO @ Wed, 28 Jun 2017 04:52:51: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 28 Jun 2017 04:52:51: #1 finished! INFO @ Wed, 28 Jun 2017 04:52:51: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:52:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:52:51: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:52:51: 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 04:52:51: Process for pairing-model is terminated! cat: SRX1044174.05_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 `SRX1044174.05_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 `SRX1044174.05_*.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 `SRX1044174.05_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 04:52:51: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:52:51: 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 04:52:51: Process for pairing-model is terminated! cat: SRX1044174.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1044174.10_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 `SRX1044174.10_*.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 `SRX1044174.10_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。