Job ID = 9161981 sra ファイルのダウンロード中... Completed: 1637962K bytes transferred in 17 seconds (780789K 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 26823064 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423713/SRR2931002.sra Written 26823064 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: 00:15:24 26823064 reads; of these: 26823064 (100.00%) were paired; of these: 10426855 (38.87%) aligned concordantly 0 times 15190013 (56.63%) aligned concordantly exactly 1 time 1206196 (4.50%) aligned concordantly >1 times ---- 10426855 pairs aligned concordantly 0 times; of these: 274191 (2.63%) aligned discordantly 1 time ---- 10152664 pairs aligned 0 times concordantly or discordantly; of these: 20305328 mates make up the pairs; of these: 19764816 (97.34%) aligned 0 times 436083 (2.15%) aligned exactly 1 time 104429 (0.51%) aligned >1 times 63.16% overall alignment rate Time searching: 00:15:24 Overall time: 00:15:24 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] 5596839 / 16634491 = 0.3365 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 05:36:06: # Command line: callpeak -t SRX1423713.bam -f BAM -g 12100000 -n SRX1423713.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423713.05 # format = BAM # ChIP-seq file = ['SRX1423713.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 05:36:06: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:36:06: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:36:06: # Command line: callpeak -t SRX1423713.bam -f BAM -g 12100000 -n SRX1423713.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423713.20 # format = BAM # ChIP-seq file = ['SRX1423713.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 05:36:06: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:36:06: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:36:06: # Command line: callpeak -t SRX1423713.bam -f BAM -g 12100000 -n SRX1423713.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423713.10 # format = BAM # ChIP-seq file = ['SRX1423713.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 05:36:06: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:36:06: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:36:13: 1000000 INFO @ Wed, 28 Jun 2017 05:36:14: 1000000 INFO @ Wed, 28 Jun 2017 05:36:14: 1000000 INFO @ Wed, 28 Jun 2017 05:36:20: 2000000 INFO @ Wed, 28 Jun 2017 05:36:20: 2000000 INFO @ Wed, 28 Jun 2017 05:36:21: 2000000 INFO @ Wed, 28 Jun 2017 05:36:26: 3000000 INFO @ Wed, 28 Jun 2017 05:36:27: 3000000 INFO @ Wed, 28 Jun 2017 05:36:28: 3000000 INFO @ Wed, 28 Jun 2017 05:36:33: 4000000 INFO @ Wed, 28 Jun 2017 05:36:34: 4000000 INFO @ Wed, 28 Jun 2017 05:36:35: 4000000 INFO @ Wed, 28 Jun 2017 05:36:40: 5000000 INFO @ Wed, 28 Jun 2017 05:36:41: 5000000 INFO @ Wed, 28 Jun 2017 05:36:43: 5000000 INFO @ Wed, 28 Jun 2017 05:36:46: 6000000 INFO @ Wed, 28 Jun 2017 05:36:48: 6000000 INFO @ Wed, 28 Jun 2017 05:36:50: 6000000 INFO @ Wed, 28 Jun 2017 05:36:53: 7000000 INFO @ Wed, 28 Jun 2017 05:36:55: 7000000 INFO @ Wed, 28 Jun 2017 05:36:57: 7000000 INFO @ Wed, 28 Jun 2017 05:36:59: 8000000 INFO @ Wed, 28 Jun 2017 05:37:02: 8000000 INFO @ Wed, 28 Jun 2017 05:37:05: 8000000 INFO @ Wed, 28 Jun 2017 05:37:06: 9000000 INFO @ Wed, 28 Jun 2017 05:37:09: 9000000 INFO @ Wed, 28 Jun 2017 05:37:12: 9000000 INFO @ Wed, 28 Jun 2017 05:37:12: 10000000 INFO @ Wed, 28 Jun 2017 05:37:16: 10000000 INFO @ Wed, 28 Jun 2017 05:37:19: 11000000 INFO @ Wed, 28 Jun 2017 05:37:20: 10000000 INFO @ Wed, 28 Jun 2017 05:37:23: 11000000 INFO @ Wed, 28 Jun 2017 05:37:26: 12000000 INFO @ Wed, 28 Jun 2017 05:37:27: 11000000 INFO @ Wed, 28 Jun 2017 05:37:30: 12000000 INFO @ Wed, 28 Jun 2017 05:37:32: 13000000 INFO @ Wed, 28 Jun 2017 05:37:34: 12000000 INFO @ Wed, 28 Jun 2017 05:37:36: 13000000 INFO @ Wed, 28 Jun 2017 05:37:39: 14000000 INFO @ Wed, 28 Jun 2017 05:37:41: 13000000 INFO @ Wed, 28 Jun 2017 05:37:43: 14000000 INFO @ Wed, 28 Jun 2017 05:37:46: 15000000 INFO @ Wed, 28 Jun 2017 05:37:49: 14000000 INFO @ Wed, 28 Jun 2017 05:37:50: 15000000 INFO @ Wed, 28 Jun 2017 05:37:53: 16000000 INFO @ Wed, 28 Jun 2017 05:37:56: 15000000 INFO @ Wed, 28 Jun 2017 05:37:57: 16000000 INFO @ Wed, 28 Jun 2017 05:37:59: 17000000 INFO @ Wed, 28 Jun 2017 05:38:03: 16000000 INFO @ Wed, 28 Jun 2017 05:38:04: 17000000 INFO @ Wed, 28 Jun 2017 05:38:06: 18000000 INFO @ Wed, 28 Jun 2017 05:38:11: 17000000 INFO @ Wed, 28 Jun 2017 05:38:11: 18000000 INFO @ Wed, 28 Jun 2017 05:38:13: 19000000 INFO @ Wed, 28 Jun 2017 05:38:18: 19000000 INFO @ Wed, 28 Jun 2017 05:38:18: 18000000 INFO @ Wed, 28 Jun 2017 05:38:19: 20000000 INFO @ Wed, 28 Jun 2017 05:38:25: 20000000 INFO @ Wed, 28 Jun 2017 05:38:25: 19000000 INFO @ Wed, 28 Jun 2017 05:38:26: 21000000 INFO @ Wed, 28 Jun 2017 05:38:31: 21000000 INFO @ Wed, 28 Jun 2017 05:38:32: 22000000 INFO @ Wed, 28 Jun 2017 05:38:32: 20000000 INFO @ Wed, 28 Jun 2017 05:38:37: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:38:37: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:38:37: #1 total tags in treatment: 10830774 INFO @ Wed, 28 Jun 2017 05:38:37: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:38:37: #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 05:38:37: #1 tags after filtering in treatment: 7246063 INFO @ Wed, 28 Jun 2017 05:38:37: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 28 Jun 2017 05:38:37: #1 finished! INFO @ Wed, 28 Jun 2017 05:38:37: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:38:37: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:38:37: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:38:37: 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 05:38:37: Process for pairing-model is terminated! cat: SRX1423713.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1423713.05_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 `SRX1423713.05_*.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 `SRX1423713.05_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 05:38:38: 22000000 INFO @ Wed, 28 Jun 2017 05:38:40: 21000000 INFO @ Wed, 28 Jun 2017 05:38:43: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:38:43: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:38:43: #1 total tags in treatment: 10830774 INFO @ Wed, 28 Jun 2017 05:38:43: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:38:43: #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 05:38:43: #1 tags after filtering in treatment: 7246063 INFO @ Wed, 28 Jun 2017 05:38:43: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 28 Jun 2017 05:38:43: #1 finished! INFO @ Wed, 28 Jun 2017 05:38:43: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:38:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:38:44: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:38:44: 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 05:38:44: Process for pairing-model is terminated! cat: SRX1423713.10_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 `SRX1423713.10_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 `SRX1423713.10_*.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 `SRX1423713.10_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 05:38:46: 22000000 INFO @ Wed, 28 Jun 2017 05:38:51: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:38:51: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:38:51: #1 total tags in treatment: 10830774 INFO @ Wed, 28 Jun 2017 05:38:51: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:38:51: #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 05:38:51: #1 tags after filtering in treatment: 7246063 INFO @ Wed, 28 Jun 2017 05:38:51: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 28 Jun 2017 05:38:51: #1 finished! INFO @ Wed, 28 Jun 2017 05:38:51: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:38:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:38:51: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:38:51: 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 05:38:51: Process for pairing-model is terminated! cat: SRX1423713.20_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 `SRX1423713.20_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 `SRX1423713.20_*.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 `SRX1423713.20_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。