Job ID = 9732084 sra ファイルのダウンロード中... Completed: 341833K bytes transferred in 11 seconds (242464K 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 14697888 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2675874/SRR5380650.sra Written 14697888 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: 00:06:15 14697888 reads; of these: 14697888 (100.00%) were paired; of these: 3919588 (26.67%) aligned concordantly 0 times 9719466 (66.13%) aligned concordantly exactly 1 time 1058834 (7.20%) aligned concordantly >1 times ---- 3919588 pairs aligned concordantly 0 times; of these: 719504 (18.36%) aligned discordantly 1 time ---- 3200084 pairs aligned 0 times concordantly or discordantly; of these: 6400168 mates make up the pairs; of these: 5678344 (88.72%) aligned 0 times 495759 (7.75%) aligned exactly 1 time 226065 (3.53%) aligned >1 times 80.68% overall alignment rate Time searching: 00:06:15 Overall time: 00:06:15 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] 1634440 / 11203853 = 0.1459 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 19:36:26: # Command line: callpeak -t SRX2675874.bam -f BAM -g 12100000 -n SRX2675874.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2675874.20 # format = BAM # ChIP-seq file = ['SRX2675874.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 19:36:26: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:36:26: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:36:26: # Command line: callpeak -t SRX2675874.bam -f BAM -g 12100000 -n SRX2675874.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2675874.05 # format = BAM # ChIP-seq file = ['SRX2675874.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 19:36:26: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:36:26: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:36:26: # Command line: callpeak -t SRX2675874.bam -f BAM -g 12100000 -n SRX2675874.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2675874.10 # format = BAM # ChIP-seq file = ['SRX2675874.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 19:36:26: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:36:26: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:36:31: 1000000 INFO @ Sun, 03 Sep 2017 19:36:31: 1000000 INFO @ Sun, 03 Sep 2017 19:36:31: 1000000 INFO @ Sun, 03 Sep 2017 19:36:36: 2000000 INFO @ Sun, 03 Sep 2017 19:36:36: 2000000 INFO @ Sun, 03 Sep 2017 19:36:37: 2000000 INFO @ Sun, 03 Sep 2017 19:36:42: 3000000 INFO @ Sun, 03 Sep 2017 19:36:42: 3000000 INFO @ Sun, 03 Sep 2017 19:36:43: 3000000 INFO @ Sun, 03 Sep 2017 19:36:47: 4000000 INFO @ Sun, 03 Sep 2017 19:36:47: 4000000 INFO @ Sun, 03 Sep 2017 19:36:48: 4000000 INFO @ Sun, 03 Sep 2017 19:36:52: 5000000 INFO @ Sun, 03 Sep 2017 19:36:52: 5000000 INFO @ Sun, 03 Sep 2017 19:36:54: 5000000 INFO @ Sun, 03 Sep 2017 19:36:58: 6000000 INFO @ Sun, 03 Sep 2017 19:36:58: 6000000 INFO @ Sun, 03 Sep 2017 19:36:59: 6000000 INFO @ Sun, 03 Sep 2017 19:37:03: 7000000 INFO @ Sun, 03 Sep 2017 19:37:03: 7000000 INFO @ Sun, 03 Sep 2017 19:37:04: 7000000 INFO @ Sun, 03 Sep 2017 19:37:08: 8000000 INFO @ Sun, 03 Sep 2017 19:37:08: 8000000 INFO @ Sun, 03 Sep 2017 19:37:10: 8000000 INFO @ Sun, 03 Sep 2017 19:37:14: 9000000 INFO @ Sun, 03 Sep 2017 19:37:14: 9000000 INFO @ Sun, 03 Sep 2017 19:37:15: 9000000 INFO @ Sun, 03 Sep 2017 19:37:19: 10000000 INFO @ Sun, 03 Sep 2017 19:37:19: 10000000 INFO @ Sun, 03 Sep 2017 19:37:21: 10000000 INFO @ Sun, 03 Sep 2017 19:37:24: 11000000 INFO @ Sun, 03 Sep 2017 19:37:24: 11000000 INFO @ Sun, 03 Sep 2017 19:37:26: 11000000 INFO @ Sun, 03 Sep 2017 19:37:29: 12000000 INFO @ Sun, 03 Sep 2017 19:37:29: 12000000 INFO @ Sun, 03 Sep 2017 19:37:32: 12000000 INFO @ Sun, 03 Sep 2017 19:37:34: 13000000 INFO @ Sun, 03 Sep 2017 19:37:35: 13000000 INFO @ Sun, 03 Sep 2017 19:37:37: 13000000 INFO @ Sun, 03 Sep 2017 19:37:39: 14000000 INFO @ Sun, 03 Sep 2017 19:37:40: 14000000 INFO @ Sun, 03 Sep 2017 19:37:42: 14000000 INFO @ Sun, 03 Sep 2017 19:37:44: 15000000 INFO @ Sun, 03 Sep 2017 19:37:45: 15000000 INFO @ Sun, 03 Sep 2017 19:37:48: 15000000 INFO @ Sun, 03 Sep 2017 19:37:48: 16000000 INFO @ Sun, 03 Sep 2017 19:37:50: 16000000 INFO @ Sun, 03 Sep 2017 19:37:53: 16000000 INFO @ Sun, 03 Sep 2017 19:37:53: 17000000 INFO @ Sun, 03 Sep 2017 19:37:55: 17000000 INFO @ Sun, 03 Sep 2017 19:37:58: 18000000 INFO @ Sun, 03 Sep 2017 19:37:59: 17000000 INFO @ Sun, 03 Sep 2017 19:38:00: 18000000 INFO @ Sun, 03 Sep 2017 19:38:03: 19000000 INFO @ Sun, 03 Sep 2017 19:38:04: 18000000 INFO @ Sun, 03 Sep 2017 19:38:06: 19000000 INFO @ Sun, 03 Sep 2017 19:38:08: 20000000 INFO @ Sun, 03 Sep 2017 19:38:09: 19000000 INFO @ Sun, 03 Sep 2017 19:38:10: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:38:10: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:38:10: #1 total tags in treatment: 9151176 INFO @ Sun, 03 Sep 2017 19:38:10: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:38:10: #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 19:38:11: #1 tags after filtering in treatment: 4366276 INFO @ Sun, 03 Sep 2017 19:38:11: #1 Redundant rate of treatment: 0.52 INFO @ Sun, 03 Sep 2017 19:38:11: #1 finished! INFO @ Sun, 03 Sep 2017 19:38:11: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:38:11: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:38:11: 20000000 INFO @ Sun, 03 Sep 2017 19:38:11: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:38:11: 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 19:38:11: Process for pairing-model is terminated! cat: SRX2675874.10_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675874.10_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 `SRX2675874.10_*.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 `SRX2675874.10_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 19:38:13: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:38:13: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:38:13: #1 total tags in treatment: 9151176 INFO @ Sun, 03 Sep 2017 19:38:13: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:38:13: #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 19:38:13: #1 tags after filtering in treatment: 4366276 INFO @ Sun, 03 Sep 2017 19:38:13: #1 Redundant rate of treatment: 0.52 INFO @ Sun, 03 Sep 2017 19:38:13: #1 finished! INFO @ Sun, 03 Sep 2017 19:38:13: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:38:13: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:38:14: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:38:14: 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 19:38:14: Process for pairing-model is terminated! cat: SRX2675874.05_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 `SRX2675874.05_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 `SRX2675874.05_*.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 `SRX2675874.05_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 19:38:15: 20000000 INFO @ Sun, 03 Sep 2017 19:38:17: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:38:17: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:38:17: #1 total tags in treatment: 9151176 INFO @ Sun, 03 Sep 2017 19:38:17: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:38:17: #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 19:38:17: #1 tags after filtering in treatment: 4366276 INFO @ Sun, 03 Sep 2017 19:38:17: #1 Redundant rate of treatment: 0.52 INFO @ Sun, 03 Sep 2017 19:38:17: #1 finished! INFO @ Sun, 03 Sep 2017 19:38:17: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:38:17: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:38:17: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:38:17: 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 19:38:17: Process for pairing-model is terminated! cat: SRX2675874.20_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): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675874.20_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 `SRX2675874.20_*.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 `SRX2675874.20_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。