Job ID = 9732080 sra ファイルのダウンロード中... Completed: 347797K bytes transferred in 13 seconds (203597K 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 14546624 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2675870/SRR5380646.sra Written 14546624 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: 00:07:03 14546624 reads; of these: 14546624 (100.00%) were paired; of these: 2966125 (20.39%) aligned concordantly 0 times 10374341 (71.32%) aligned concordantly exactly 1 time 1206158 (8.29%) aligned concordantly >1 times ---- 2966125 pairs aligned concordantly 0 times; of these: 266168 (8.97%) aligned discordantly 1 time ---- 2699957 pairs aligned 0 times concordantly or discordantly; of these: 5399914 mates make up the pairs; of these: 4924556 (91.20%) aligned 0 times 369954 (6.85%) aligned exactly 1 time 105404 (1.95%) aligned >1 times 83.07% overall alignment rate Time searching: 00:07:03 Overall time: 00:07:03 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 8 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] 1824891 / 11779390 = 0.1549 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 @ Sun, 03 Sep 2017 19:36:48: # Command line: callpeak -t SRX2675870.bam -f BAM -g 12100000 -n SRX2675870.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2675870.05 # format = BAM # ChIP-seq file = ['SRX2675870.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 @ Sun, 03 Sep 2017 19:36:48: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:36:48: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:36:48: # Command line: callpeak -t SRX2675870.bam -f BAM -g 12100000 -n SRX2675870.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2675870.20 # format = BAM # ChIP-seq file = ['SRX2675870.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 @ Sun, 03 Sep 2017 19:36:48: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:36:48: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:36:48: # Command line: callpeak -t SRX2675870.bam -f BAM -g 12100000 -n SRX2675870.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2675870.10 # format = BAM # ChIP-seq file = ['SRX2675870.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 @ Sun, 03 Sep 2017 19:36:48: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:36:48: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:36:54: 1000000 INFO @ Sun, 03 Sep 2017 19:36:54: 1000000 INFO @ Sun, 03 Sep 2017 19:36:54: 1000000 INFO @ Sun, 03 Sep 2017 19:37:00: 2000000 INFO @ Sun, 03 Sep 2017 19:37:00: 2000000 INFO @ Sun, 03 Sep 2017 19:37:00: 2000000 INFO @ Sun, 03 Sep 2017 19:37:05: 3000000 INFO @ Sun, 03 Sep 2017 19:37:05: 3000000 INFO @ Sun, 03 Sep 2017 19:37:06: 3000000 INFO @ Sun, 03 Sep 2017 19:37:11: 4000000 INFO @ Sun, 03 Sep 2017 19:37:11: 4000000 INFO @ Sun, 03 Sep 2017 19:37:12: 4000000 INFO @ Sun, 03 Sep 2017 19:37:17: 5000000 INFO @ Sun, 03 Sep 2017 19:37:17: 5000000 INFO @ Sun, 03 Sep 2017 19:37:18: 5000000 INFO @ Sun, 03 Sep 2017 19:37:22: 6000000 INFO @ Sun, 03 Sep 2017 19:37:23: 6000000 INFO @ Sun, 03 Sep 2017 19:37:24: 6000000 INFO @ Sun, 03 Sep 2017 19:37:28: 7000000 INFO @ Sun, 03 Sep 2017 19:37:28: 7000000 INFO @ Sun, 03 Sep 2017 19:37:30: 7000000 INFO @ Sun, 03 Sep 2017 19:37:34: 8000000 INFO @ Sun, 03 Sep 2017 19:37:34: 8000000 INFO @ Sun, 03 Sep 2017 19:37:36: 8000000 INFO @ Sun, 03 Sep 2017 19:37:39: 9000000 INFO @ Sun, 03 Sep 2017 19:37:40: 9000000 INFO @ Sun, 03 Sep 2017 19:37:42: 9000000 INFO @ Sun, 03 Sep 2017 19:37:45: 10000000 INFO @ Sun, 03 Sep 2017 19:37:46: 10000000 INFO @ Sun, 03 Sep 2017 19:37:48: 10000000 INFO @ Sun, 03 Sep 2017 19:37:50: 11000000 INFO @ Sun, 03 Sep 2017 19:37:52: 11000000 INFO @ Sun, 03 Sep 2017 19:37:53: 11000000 INFO @ Sun, 03 Sep 2017 19:37:56: 12000000 INFO @ Sun, 03 Sep 2017 19:37:57: 12000000 INFO @ Sun, 03 Sep 2017 19:37:59: 12000000 INFO @ Sun, 03 Sep 2017 19:38:01: 13000000 INFO @ Sun, 03 Sep 2017 19:38:03: 13000000 INFO @ Sun, 03 Sep 2017 19:38:05: 13000000 INFO @ Sun, 03 Sep 2017 19:38:07: 14000000 INFO @ Sun, 03 Sep 2017 19:38:09: 14000000 INFO @ Sun, 03 Sep 2017 19:38:11: 14000000 INFO @ Sun, 03 Sep 2017 19:38:12: 15000000 INFO @ Sun, 03 Sep 2017 19:38:14: 15000000 INFO @ Sun, 03 Sep 2017 19:38:17: 15000000 INFO @ Sun, 03 Sep 2017 19:38:18: 16000000 INFO @ Sun, 03 Sep 2017 19:38:20: 16000000 INFO @ Sun, 03 Sep 2017 19:38:23: 16000000 INFO @ Sun, 03 Sep 2017 19:38:23: 17000000 INFO @ Sun, 03 Sep 2017 19:38:26: 17000000 INFO @ Sun, 03 Sep 2017 19:38:29: 17000000 INFO @ Sun, 03 Sep 2017 19:38:29: 18000000 INFO @ Sun, 03 Sep 2017 19:38:32: 18000000 INFO @ Sun, 03 Sep 2017 19:38:35: 19000000 INFO @ Sun, 03 Sep 2017 19:38:35: 18000000 INFO @ Sun, 03 Sep 2017 19:38:37: 19000000 INFO @ Sun, 03 Sep 2017 19:38:40: 20000000 INFO @ Sun, 03 Sep 2017 19:38:41: 19000000 INFO @ Sun, 03 Sep 2017 19:38:43: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:38:43: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:38:43: #1 total tags in treatment: 9757162 INFO @ Sun, 03 Sep 2017 19:38:43: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:38:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Sep 2017 19:38:43: 20000000 INFO @ Sun, 03 Sep 2017 19:38:43: #1 tags after filtering in treatment: 4278820 INFO @ Sun, 03 Sep 2017 19:38:43: #1 Redundant rate of treatment: 0.56 INFO @ Sun, 03 Sep 2017 19:38:43: #1 finished! INFO @ Sun, 03 Sep 2017 19:38:43: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:38:43: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:38:43: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:38:43: 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 @ Sun, 03 Sep 2017 19:38:43: Process for pairing-model is terminated! cat: SRX2675870.10_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): 11 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675870.10_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 `SRX2675870.10_*.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 `SRX2675870.10_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 @ Sun, 03 Sep 2017 19:38:46: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:38:46: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:38:46: #1 total tags in treatment: 9757162 INFO @ Sun, 03 Sep 2017 19:38:46: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:38:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Sep 2017 19:38:46: #1 tags after filtering in treatment: 4278820 INFO @ Sun, 03 Sep 2017 19:38:46: #1 Redundant rate of treatment: 0.56 INFO @ Sun, 03 Sep 2017 19:38:46: #1 finished! INFO @ Sun, 03 Sep 2017 19:38:46: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:38:46: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:38:46: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:38:46: 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 @ Sun, 03 Sep 2017 19:38:46: Process for pairing-model is terminated! cat: SRX2675870.05_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): 12 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675870.05_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 `SRX2675870.05_*.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 `SRX2675870.05_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 @ Sun, 03 Sep 2017 19:38:47: 20000000 INFO @ Sun, 03 Sep 2017 19:38:49: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:38:49: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:38:49: #1 total tags in treatment: 9757162 INFO @ Sun, 03 Sep 2017 19:38:49: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:38:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Sep 2017 19:38:50: #1 tags after filtering in treatment: 4278820 INFO @ Sun, 03 Sep 2017 19:38:50: #1 Redundant rate of treatment: 0.56 INFO @ Sun, 03 Sep 2017 19:38:50: #1 finished! INFO @ Sun, 03 Sep 2017 19:38:50: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:38:50: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:38:50: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:38:50: 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 @ Sun, 03 Sep 2017 19:38:50: Process for pairing-model is terminated! cat: SRX2675870.20_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): 10 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675870.20_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 `SRX2675870.20_*.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 `SRX2675870.20_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。