Job ID = 9161948 sra ファイルのダウンロード中... Completed: 1310481K bytes transferred in 13 seconds (823513K 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 22101846 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423682/SRR2930971.sra Written 22101846 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: 00:10:14 22101846 reads; of these: 22101846 (100.00%) were paired; of these: 10488496 (47.46%) aligned concordantly 0 times 10183306 (46.07%) aligned concordantly exactly 1 time 1430044 (6.47%) aligned concordantly >1 times ---- 10488496 pairs aligned concordantly 0 times; of these: 55298 (0.53%) aligned discordantly 1 time ---- 10433198 pairs aligned 0 times concordantly or discordantly; of these: 20866396 mates make up the pairs; of these: 20668424 (99.05%) aligned 0 times 152728 (0.73%) aligned exactly 1 time 45244 (0.22%) aligned >1 times 53.24% overall alignment rate Time searching: 00:10:14 Overall time: 00:10:14 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] 825052 / 11656789 = 0.0708 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 05:21:36: # Command line: callpeak -t SRX1423682.bam -f BAM -g 12100000 -n SRX1423682.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423682.05 # format = BAM # ChIP-seq file = ['SRX1423682.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 05:21:36: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:21:36: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:21:36: # Command line: callpeak -t SRX1423682.bam -f BAM -g 12100000 -n SRX1423682.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423682.10 # format = BAM # ChIP-seq file = ['SRX1423682.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 05:21:36: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:21:36: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:21:36: # Command line: callpeak -t SRX1423682.bam -f BAM -g 12100000 -n SRX1423682.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423682.20 # format = BAM # ChIP-seq file = ['SRX1423682.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 05:21:36: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:21:36: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:21:42: 1000000 INFO @ Wed, 28 Jun 2017 05:21:42: 1000000 INFO @ Wed, 28 Jun 2017 05:21:42: 1000000 INFO @ Wed, 28 Jun 2017 05:21:48: 2000000 INFO @ Wed, 28 Jun 2017 05:21:48: 2000000 INFO @ Wed, 28 Jun 2017 05:21:48: 2000000 INFO @ Wed, 28 Jun 2017 05:21:54: 3000000 INFO @ Wed, 28 Jun 2017 05:21:54: 3000000 INFO @ Wed, 28 Jun 2017 05:21:55: 3000000 INFO @ Wed, 28 Jun 2017 05:22:00: 4000000 INFO @ Wed, 28 Jun 2017 05:22:00: 4000000 INFO @ Wed, 28 Jun 2017 05:22:01: 4000000 INFO @ Wed, 28 Jun 2017 05:22:06: 5000000 INFO @ Wed, 28 Jun 2017 05:22:06: 5000000 INFO @ Wed, 28 Jun 2017 05:22:07: 5000000 INFO @ Wed, 28 Jun 2017 05:22:12: 6000000 INFO @ Wed, 28 Jun 2017 05:22:12: 6000000 INFO @ Wed, 28 Jun 2017 05:22:13: 6000000 INFO @ Wed, 28 Jun 2017 05:22:18: 7000000 INFO @ Wed, 28 Jun 2017 05:22:18: 7000000 INFO @ Wed, 28 Jun 2017 05:22:19: 7000000 INFO @ Wed, 28 Jun 2017 05:22:24: 8000000 INFO @ Wed, 28 Jun 2017 05:22:24: 8000000 INFO @ Wed, 28 Jun 2017 05:22:25: 8000000 INFO @ Wed, 28 Jun 2017 05:22:30: 9000000 INFO @ Wed, 28 Jun 2017 05:22:30: 9000000 INFO @ Wed, 28 Jun 2017 05:22:31: 9000000 INFO @ Wed, 28 Jun 2017 05:22:36: 10000000 INFO @ Wed, 28 Jun 2017 05:22:36: 10000000 INFO @ Wed, 28 Jun 2017 05:22:37: 10000000 INFO @ Wed, 28 Jun 2017 05:22:42: 11000000 INFO @ Wed, 28 Jun 2017 05:22:42: 11000000 INFO @ Wed, 28 Jun 2017 05:22:43: 11000000 INFO @ Wed, 28 Jun 2017 05:22:48: 12000000 INFO @ Wed, 28 Jun 2017 05:22:48: 12000000 INFO @ Wed, 28 Jun 2017 05:22:49: 12000000 INFO @ Wed, 28 Jun 2017 05:22:54: 13000000 INFO @ Wed, 28 Jun 2017 05:22:54: 13000000 INFO @ Wed, 28 Jun 2017 05:22:55: 13000000 INFO @ Wed, 28 Jun 2017 05:23:00: 14000000 INFO @ Wed, 28 Jun 2017 05:23:00: 14000000 INFO @ Wed, 28 Jun 2017 05:23:01: 14000000 INFO @ Wed, 28 Jun 2017 05:23:07: 15000000 INFO @ Wed, 28 Jun 2017 05:23:07: 15000000 INFO @ Wed, 28 Jun 2017 05:23:07: 15000000 INFO @ Wed, 28 Jun 2017 05:23:13: 16000000 INFO @ Wed, 28 Jun 2017 05:23:13: 16000000 INFO @ Wed, 28 Jun 2017 05:23:13: 16000000 INFO @ Wed, 28 Jun 2017 05:23:19: 17000000 INFO @ Wed, 28 Jun 2017 05:23:19: 17000000 INFO @ Wed, 28 Jun 2017 05:23:19: 17000000 INFO @ Wed, 28 Jun 2017 05:23:25: 18000000 INFO @ Wed, 28 Jun 2017 05:23:25: 18000000 INFO @ Wed, 28 Jun 2017 05:23:25: 18000000 INFO @ Wed, 28 Jun 2017 05:23:31: 19000000 INFO @ Wed, 28 Jun 2017 05:23:31: 19000000 INFO @ Wed, 28 Jun 2017 05:23:31: 19000000 INFO @ Wed, 28 Jun 2017 05:23:37: 20000000 INFO @ Wed, 28 Jun 2017 05:23:37: 20000000 INFO @ Wed, 28 Jun 2017 05:23:37: 20000000 INFO @ Wed, 28 Jun 2017 05:23:43: 21000000 INFO @ Wed, 28 Jun 2017 05:23:43: 21000000 INFO @ Wed, 28 Jun 2017 05:23:43: 21000000 INFO @ Wed, 28 Jun 2017 05:23:48: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:23:48: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:23:48: #1 total tags in treatment: 10789394 INFO @ Wed, 28 Jun 2017 05:23:48: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:23:48: #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 05:23:48: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:23:48: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:23:48: #1 total tags in treatment: 10789394 INFO @ Wed, 28 Jun 2017 05:23:48: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:23:48: #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 05:23:49: #1 tags after filtering in treatment: 8025454 INFO @ Wed, 28 Jun 2017 05:23:49: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 28 Jun 2017 05:23:49: #1 finished! INFO @ Wed, 28 Jun 2017 05:23:49: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:23:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:23:49: #1 tags after filtering in treatment: 8025454 INFO @ Wed, 28 Jun 2017 05:23:49: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 28 Jun 2017 05:23:49: #1 finished! INFO @ Wed, 28 Jun 2017 05:23:49: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:23:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:23:49: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:23:49: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:23:49: #1 total tags in treatment: 10789394 INFO @ Wed, 28 Jun 2017 05:23:49: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:23:49: #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 05:23:49: #1 tags after filtering in treatment: 8025454 INFO @ Wed, 28 Jun 2017 05:23:49: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 28 Jun 2017 05:23:49: #1 finished! INFO @ Wed, 28 Jun 2017 05:23:49: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:23:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:23:49: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:23:49: 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 05:23:49: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 05:23:49: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:23:49: 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 05:23:49: Process for pairing-model is terminated! cat: SRX1423682.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX1423682.10_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 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 `SRX1423682.05_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 `SRX1423682.05_*.xls'rm: : そのようなファイルやディレクトリはありませんcannot remove `SRX1423682.10_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 `SRX1423682.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1423682.10_*.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 `SRX1423682.10_peaks.narrowPeak'CompletedMACS2peakCalling : 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 05:23:49: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:23:49: 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 05:23:49: Process for pairing-model is terminated! cat: SRX1423682.20_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 `SRX1423682.20_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 `SRX1423682.20_*.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 `SRX1423682.20_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。