Job ID = 10536490 sra ファイルのダウンロード中... Completed: 1656822K bytes transferred in 31 seconds (436765K bits/sec), in 1 file. 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 39268504 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671186/SRR6696938.sra Written 39268504 spots total rm: cannot remove `[DSE]RX*': 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 `[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: 00:19:54 39268504 reads; of these: 39268504 (100.00%) were paired; of these: 15682737 (39.94%) aligned concordantly 0 times 20442856 (52.06%) aligned concordantly exactly 1 time 3142911 (8.00%) aligned concordantly >1 times ---- 15682737 pairs aligned concordantly 0 times; of these: 26087 (0.17%) aligned discordantly 1 time ---- 15656650 pairs aligned 0 times concordantly or discordantly; of these: 31313300 mates make up the pairs; of these: 31107570 (99.34%) aligned 0 times 166556 (0.53%) aligned exactly 1 time 39174 (0.13%) aligned >1 times 60.39% overall alignment rate Time searching: 00:19:54 Overall time: 00:19:54 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 20 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] 11983137 / 23601869 = 0.5077 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 @ Thu, 05 Apr 2018 10:18:19: # Command line: callpeak -t SRX3671186.bam -f BAM -g 12100000 -n SRX3671186.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671186.10 # format = BAM # ChIP-seq file = ['SRX3671186.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 @ Thu, 05 Apr 2018 10:18:19: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:18:19: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:18:19: # Command line: callpeak -t SRX3671186.bam -f BAM -g 12100000 -n SRX3671186.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671186.05 # format = BAM # ChIP-seq file = ['SRX3671186.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 @ Thu, 05 Apr 2018 10:18:19: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:18:19: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:18:19: # Command line: callpeak -t SRX3671186.bam -f BAM -g 12100000 -n SRX3671186.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671186.20 # format = BAM # ChIP-seq file = ['SRX3671186.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 @ Thu, 05 Apr 2018 10:18:19: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:18:19: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:18:26: 1000000 INFO @ Thu, 05 Apr 2018 10:18:26: 1000000 INFO @ Thu, 05 Apr 2018 10:18:26: 1000000 INFO @ Thu, 05 Apr 2018 10:18:32: 2000000 INFO @ Thu, 05 Apr 2018 10:18:32: 2000000 INFO @ Thu, 05 Apr 2018 10:18:32: 2000000 INFO @ Thu, 05 Apr 2018 10:18:38: 3000000 INFO @ Thu, 05 Apr 2018 10:18:39: 3000000 INFO @ Thu, 05 Apr 2018 10:18:39: 3000000 INFO @ Thu, 05 Apr 2018 10:18:45: 4000000 INFO @ Thu, 05 Apr 2018 10:18:45: 4000000 INFO @ Thu, 05 Apr 2018 10:18:45: 4000000 INFO @ Thu, 05 Apr 2018 10:18:51: 5000000 INFO @ Thu, 05 Apr 2018 10:18:51: 5000000 INFO @ Thu, 05 Apr 2018 10:18:51: 5000000 INFO @ Thu, 05 Apr 2018 10:18:57: 6000000 INFO @ Thu, 05 Apr 2018 10:18:58: 6000000 INFO @ Thu, 05 Apr 2018 10:18:58: 6000000 INFO @ Thu, 05 Apr 2018 10:19:04: 7000000 INFO @ Thu, 05 Apr 2018 10:19:04: 7000000 INFO @ Thu, 05 Apr 2018 10:19:04: 7000000 INFO @ Thu, 05 Apr 2018 10:19:10: 8000000 INFO @ Thu, 05 Apr 2018 10:19:11: 8000000 INFO @ Thu, 05 Apr 2018 10:19:11: 8000000 INFO @ Thu, 05 Apr 2018 10:19:16: 9000000 INFO @ Thu, 05 Apr 2018 10:19:17: 9000000 INFO @ Thu, 05 Apr 2018 10:19:17: 9000000 INFO @ Thu, 05 Apr 2018 10:19:22: 10000000 INFO @ Thu, 05 Apr 2018 10:19:24: 10000000 INFO @ Thu, 05 Apr 2018 10:19:24: 10000000 INFO @ Thu, 05 Apr 2018 10:19:29: 11000000 INFO @ Thu, 05 Apr 2018 10:19:30: 11000000 INFO @ Thu, 05 Apr 2018 10:19:30: 11000000 INFO @ Thu, 05 Apr 2018 10:19:35: 12000000 INFO @ Thu, 05 Apr 2018 10:19:36: 12000000 INFO @ Thu, 05 Apr 2018 10:19:37: 12000000 INFO @ Thu, 05 Apr 2018 10:19:42: 13000000 INFO @ Thu, 05 Apr 2018 10:19:43: 13000000 INFO @ Thu, 05 Apr 2018 10:19:44: 13000000 INFO @ Thu, 05 Apr 2018 10:19:49: 14000000 INFO @ Thu, 05 Apr 2018 10:19:49: 14000000 INFO @ Thu, 05 Apr 2018 10:19:50: 14000000 INFO @ Thu, 05 Apr 2018 10:19:55: 15000000 INFO @ Thu, 05 Apr 2018 10:19:56: 15000000 INFO @ Thu, 05 Apr 2018 10:19:57: 15000000 INFO @ Thu, 05 Apr 2018 10:20:01: 16000000 INFO @ Thu, 05 Apr 2018 10:20:02: 16000000 INFO @ Thu, 05 Apr 2018 10:20:03: 16000000 INFO @ Thu, 05 Apr 2018 10:20:08: 17000000 INFO @ Thu, 05 Apr 2018 10:20:09: 17000000 INFO @ Thu, 05 Apr 2018 10:20:09: 17000000 INFO @ Thu, 05 Apr 2018 10:20:15: 18000000 INFO @ Thu, 05 Apr 2018 10:20:15: 18000000 INFO @ Thu, 05 Apr 2018 10:20:15: 18000000 INFO @ Thu, 05 Apr 2018 10:20:22: 19000000 INFO @ Thu, 05 Apr 2018 10:20:22: 19000000 INFO @ Thu, 05 Apr 2018 10:20:22: 19000000 INFO @ Thu, 05 Apr 2018 10:20:28: 20000000 INFO @ Thu, 05 Apr 2018 10:20:29: 20000000 INFO @ Thu, 05 Apr 2018 10:20:30: 20000000 INFO @ Thu, 05 Apr 2018 10:20:34: 21000000 INFO @ Thu, 05 Apr 2018 10:20:36: 21000000 INFO @ Thu, 05 Apr 2018 10:20:37: 21000000 INFO @ Thu, 05 Apr 2018 10:20:40: 22000000 INFO @ Thu, 05 Apr 2018 10:20:42: 22000000 INFO @ Thu, 05 Apr 2018 10:20:44: 22000000 INFO @ Thu, 05 Apr 2018 10:20:46: 23000000 INFO @ Thu, 05 Apr 2018 10:20:49: 23000000 INFO @ Thu, 05 Apr 2018 10:20:49: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:20:49: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:20:49: #1 total tags in treatment: 11608637 INFO @ Thu, 05 Apr 2018 10:20:49: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:20:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:20:49: #1 tags after filtering in treatment: 8338467 INFO @ Thu, 05 Apr 2018 10:20:49: #1 Redundant rate of treatment: 0.28 INFO @ Thu, 05 Apr 2018 10:20:49: #1 finished! INFO @ Thu, 05 Apr 2018 10:20:49: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:20:49: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:20:49: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:20:49: 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 @ Thu, 05 Apr 2018 10:20:49: Process for pairing-model is terminated! cat: SRX3671186.20_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 `SRX3671186.20_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 `SRX3671186.20_*.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 `SRX3671186.20_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 @ Thu, 05 Apr 2018 10:20:50: 23000000 INFO @ Thu, 05 Apr 2018 10:20:52: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:20:52: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:20:52: #1 total tags in treatment: 11608637 INFO @ Thu, 05 Apr 2018 10:20:52: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:20:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:20:52: #1 tags after filtering in treatment: 8338467 INFO @ Thu, 05 Apr 2018 10:20:52: #1 Redundant rate of treatment: 0.28 INFO @ Thu, 05 Apr 2018 10:20:52: #1 finished! INFO @ Thu, 05 Apr 2018 10:20:52: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:20:52: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:20:52: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:20:52: 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 @ Thu, 05 Apr 2018 10:20:52: Process for pairing-model is terminated! cat: SRX3671186.10_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 `SRX3671186.10_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 `SRX3671186.10_*.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 `SRX3671186.10_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 @ Thu, 05 Apr 2018 10:20:53: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:20:53: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:20:53: #1 total tags in treatment: 11608637 INFO @ Thu, 05 Apr 2018 10:20:53: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:20:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:20:53: #1 tags after filtering in treatment: 8338467 INFO @ Thu, 05 Apr 2018 10:20:53: #1 Redundant rate of treatment: 0.28 INFO @ Thu, 05 Apr 2018 10:20:53: #1 finished! INFO @ Thu, 05 Apr 2018 10:20:53: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:20:53: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:20:54: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:20:54: 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 @ Thu, 05 Apr 2018 10:20:54: Process for pairing-model is terminated! cat: SRX3671186.05_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 `SRX3671186.05_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 `SRX3671186.05_*.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 `SRX3671186.05_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。