Job ID = 9161965 sra ファイルのダウンロード中... Completed: 706094K bytes transferred in 8 seconds (678580K 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 12233963 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423697/SRR2930986.sra Written 12233963 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: 00:09:47 12233963 reads; of these: 12233963 (100.00%) were paired; of these: 618825 (5.06%) aligned concordantly 0 times 10316919 (84.33%) aligned concordantly exactly 1 time 1298219 (10.61%) aligned concordantly >1 times ---- 618825 pairs aligned concordantly 0 times; of these: 16561 (2.68%) aligned discordantly 1 time ---- 602264 pairs aligned 0 times concordantly or discordantly; of these: 1204528 mates make up the pairs; of these: 1077366 (89.44%) aligned 0 times 103152 (8.56%) aligned exactly 1 time 24010 (1.99%) aligned >1 times 95.60% overall alignment rate Time searching: 00:09:47 Overall time: 00:09:47 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] 3035088 / 11617652 = 0.2612 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 05:22:38: # Command line: callpeak -t SRX1423697.bam -f BAM -g 12100000 -n SRX1423697.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423697.10 # format = BAM # ChIP-seq file = ['SRX1423697.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 05:22:38: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:22:38: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:22:38: # Command line: callpeak -t SRX1423697.bam -f BAM -g 12100000 -n SRX1423697.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423697.05 # format = BAM # ChIP-seq file = ['SRX1423697.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 05:22:38: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:22:38: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:22:38: # Command line: callpeak -t SRX1423697.bam -f BAM -g 12100000 -n SRX1423697.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423697.20 # format = BAM # ChIP-seq file = ['SRX1423697.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 05:22:38: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:22:38: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:22:44: 1000000 INFO @ Wed, 28 Jun 2017 05:22:45: 1000000 INFO @ Wed, 28 Jun 2017 05:22:45: 1000000 INFO @ Wed, 28 Jun 2017 05:22:49: 2000000 INFO @ Wed, 28 Jun 2017 05:22:51: 2000000 INFO @ Wed, 28 Jun 2017 05:22:51: 2000000 INFO @ Wed, 28 Jun 2017 05:22:55: 3000000 INFO @ Wed, 28 Jun 2017 05:22:58: 3000000 INFO @ Wed, 28 Jun 2017 05:22:58: 3000000 INFO @ Wed, 28 Jun 2017 05:23:01: 4000000 INFO @ Wed, 28 Jun 2017 05:23:04: 4000000 INFO @ Wed, 28 Jun 2017 05:23:04: 4000000 INFO @ Wed, 28 Jun 2017 05:23:06: 5000000 INFO @ Wed, 28 Jun 2017 05:23:11: 5000000 INFO @ Wed, 28 Jun 2017 05:23:11: 5000000 INFO @ Wed, 28 Jun 2017 05:23:12: 6000000 INFO @ Wed, 28 Jun 2017 05:23:17: 6000000 INFO @ Wed, 28 Jun 2017 05:23:17: 6000000 INFO @ Wed, 28 Jun 2017 05:23:17: 7000000 INFO @ Wed, 28 Jun 2017 05:23:23: 8000000 INFO @ Wed, 28 Jun 2017 05:23:23: 7000000 INFO @ Wed, 28 Jun 2017 05:23:23: 7000000 INFO @ Wed, 28 Jun 2017 05:23:29: 9000000 INFO @ Wed, 28 Jun 2017 05:23:29: 8000000 INFO @ Wed, 28 Jun 2017 05:23:29: 8000000 INFO @ Wed, 28 Jun 2017 05:23:34: 10000000 INFO @ Wed, 28 Jun 2017 05:23:36: 9000000 INFO @ Wed, 28 Jun 2017 05:23:36: 9000000 INFO @ Wed, 28 Jun 2017 05:23:40: 11000000 INFO @ Wed, 28 Jun 2017 05:23:42: 10000000 INFO @ Wed, 28 Jun 2017 05:23:42: 10000000 INFO @ Wed, 28 Jun 2017 05:23:45: 12000000 INFO @ Wed, 28 Jun 2017 05:23:48: 11000000 INFO @ Wed, 28 Jun 2017 05:23:49: 11000000 INFO @ Wed, 28 Jun 2017 05:23:51: 13000000 INFO @ Wed, 28 Jun 2017 05:23:55: 12000000 INFO @ Wed, 28 Jun 2017 05:23:56: 12000000 INFO @ Wed, 28 Jun 2017 05:23:56: 14000000 INFO @ Wed, 28 Jun 2017 05:24:02: 13000000 INFO @ Wed, 28 Jun 2017 05:24:02: 15000000 INFO @ Wed, 28 Jun 2017 05:24:03: 13000000 INFO @ Wed, 28 Jun 2017 05:24:08: 16000000 INFO @ Wed, 28 Jun 2017 05:24:08: 14000000 INFO @ Wed, 28 Jun 2017 05:24:10: 14000000 INFO @ Wed, 28 Jun 2017 05:24:13: 17000000 INFO @ Wed, 28 Jun 2017 05:24:15: 15000000 INFO @ Wed, 28 Jun 2017 05:24:15: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:24:15: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:24:15: #1 total tags in treatment: 8580402 INFO @ Wed, 28 Jun 2017 05:24:15: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:24:15: #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 05:24:15: #1 tags after filtering in treatment: 6763453 INFO @ Wed, 28 Jun 2017 05:24:15: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 28 Jun 2017 05:24:15: #1 finished! INFO @ Wed, 28 Jun 2017 05:24:15: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:24:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:24:16: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:24:16: 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 05:24:16: Process for pairing-model is terminated! cat: SRX1423697.10_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 `SRX1423697.10_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 `SRX1423697.10_*.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 `SRX1423697.10_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 05:24:16: 15000000 INFO @ Wed, 28 Jun 2017 05:24:22: 16000000 INFO @ Wed, 28 Jun 2017 05:24:23: 16000000 INFO @ Wed, 28 Jun 2017 05:24:28: 17000000 INFO @ Wed, 28 Jun 2017 05:24:30: 17000000 INFO @ Wed, 28 Jun 2017 05:24:31: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:24:31: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:24:31: #1 total tags in treatment: 8580402 INFO @ Wed, 28 Jun 2017 05:24:31: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:24:31: #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 05:24:31: #1 tags after filtering in treatment: 6763453 INFO @ Wed, 28 Jun 2017 05:24:31: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 28 Jun 2017 05:24:31: #1 finished! INFO @ Wed, 28 Jun 2017 05:24:31: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:24:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:24:31: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:24:31: 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 05:24:31: Process for pairing-model is terminated! cat: SRX1423697.20_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 `SRX1423697.20_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 `SRX1423697.20_*.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 `SRX1423697.20_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 05:24:32: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:24:32: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:24:32: #1 total tags in treatment: 8580402 INFO @ Wed, 28 Jun 2017 05:24:32: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:24:32: #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 05:24:33: #1 tags after filtering in treatment: 6763453 INFO @ Wed, 28 Jun 2017 05:24:33: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 28 Jun 2017 05:24:33: #1 finished! INFO @ Wed, 28 Jun 2017 05:24:33: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:24:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:24:33: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:24:33: 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 05:24:33: Process for pairing-model is terminated! cat: SRX1423697.05_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 `SRX1423697.05_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 `SRX1423697.05_*.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 `SRX1423697.05_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。