Job ID = 11632747 sra ファイルのダウンロード中... Completed: 704543K bytes transferred in 9 seconds (640680K 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... Read 6750039 spots for /home/okishinya/chipatlas/results/sacCer3/DRX123817/DRR131079.sra Written 6750039 spots for /home/okishinya/chipatlas/results/sacCer3/DRX123817/DRR131079.sra 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: 00:07:02 6750039 reads; of these: 6750039 (100.00%) were paired; of these: 596575 (8.84%) aligned concordantly 0 times 5725714 (84.82%) aligned concordantly exactly 1 time 427750 (6.34%) aligned concordantly >1 times ---- 596575 pairs aligned concordantly 0 times; of these: 224909 (37.70%) aligned discordantly 1 time ---- 371666 pairs aligned 0 times concordantly or discordantly; of these: 743332 mates make up the pairs; of these: 618051 (83.15%) aligned 0 times 80193 (10.79%) aligned exactly 1 time 45088 (6.07%) aligned >1 times 95.42% overall alignment rate Time searching: 00:07:02 Overall time: 00:07:02 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] 22474 / 6356111 = 0.0035 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 @ Fri, 15 Feb 2019 07:22:36: # Command line: callpeak -t DRX123817.bam -f BAM -g 12100000 -n DRX123817.20 -q 1e-20 # ARGUMENTS LIST: # name = DRX123817.20 # format = BAM # ChIP-seq file = ['DRX123817.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 @ Fri, 15 Feb 2019 07:22:36: #1 read tag files... INFO @ Fri, 15 Feb 2019 07:22:36: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 07:22:36: # Command line: callpeak -t DRX123817.bam -f BAM -g 12100000 -n DRX123817.05 -q 1e-05 # ARGUMENTS LIST: # name = DRX123817.05 # format = BAM # ChIP-seq file = ['DRX123817.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 @ Fri, 15 Feb 2019 07:22:36: #1 read tag files... INFO @ Fri, 15 Feb 2019 07:22:36: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 07:22:36: # Command line: callpeak -t DRX123817.bam -f BAM -g 12100000 -n DRX123817.10 -q 1e-10 # ARGUMENTS LIST: # name = DRX123817.10 # format = BAM # ChIP-seq file = ['DRX123817.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 @ Fri, 15 Feb 2019 07:22:36: #1 read tag files... INFO @ Fri, 15 Feb 2019 07:22:36: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 07:22:42: 1000000 INFO @ Fri, 15 Feb 2019 07:22:42: 1000000 INFO @ Fri, 15 Feb 2019 07:22:43: 1000000 INFO @ Fri, 15 Feb 2019 07:22:49: 2000000 INFO @ Fri, 15 Feb 2019 07:22:50: 2000000 INFO @ Fri, 15 Feb 2019 07:22:50: 2000000 INFO @ Fri, 15 Feb 2019 07:22:56: 3000000 INFO @ Fri, 15 Feb 2019 07:22:57: 3000000 INFO @ Fri, 15 Feb 2019 07:22:58: 3000000 INFO @ Fri, 15 Feb 2019 07:23:03: 4000000 INFO @ Fri, 15 Feb 2019 07:23:04: 4000000 INFO @ Fri, 15 Feb 2019 07:23:06: 4000000 INFO @ Fri, 15 Feb 2019 07:23:10: 5000000 INFO @ Fri, 15 Feb 2019 07:23:11: 5000000 INFO @ Fri, 15 Feb 2019 07:23:14: 5000000 INFO @ Fri, 15 Feb 2019 07:23:18: 6000000 INFO @ Fri, 15 Feb 2019 07:23:19: 6000000 INFO @ Fri, 15 Feb 2019 07:23:22: 6000000 INFO @ Fri, 15 Feb 2019 07:23:25: 7000000 INFO @ Fri, 15 Feb 2019 07:23:26: 7000000 INFO @ Fri, 15 Feb 2019 07:23:30: 7000000 INFO @ Fri, 15 Feb 2019 07:23:32: 8000000 INFO @ Fri, 15 Feb 2019 07:23:34: 8000000 INFO @ Fri, 15 Feb 2019 07:23:38: 8000000 INFO @ Fri, 15 Feb 2019 07:23:39: 9000000 INFO @ Fri, 15 Feb 2019 07:23:41: 9000000 INFO @ Fri, 15 Feb 2019 07:23:46: 9000000 INFO @ Fri, 15 Feb 2019 07:23:46: 10000000 INFO @ Fri, 15 Feb 2019 07:23:49: 10000000 INFO @ Fri, 15 Feb 2019 07:23:54: 11000000 INFO @ Fri, 15 Feb 2019 07:23:54: 10000000 INFO @ Fri, 15 Feb 2019 07:23:56: 11000000 INFO @ Fri, 15 Feb 2019 07:24:01: 12000000 INFO @ Fri, 15 Feb 2019 07:24:02: 11000000 INFO @ Fri, 15 Feb 2019 07:24:03: 12000000 INFO @ Fri, 15 Feb 2019 07:24:07: #1 tag size is determined as 74 bps INFO @ Fri, 15 Feb 2019 07:24:07: #1 tag size = 74 INFO @ Fri, 15 Feb 2019 07:24:07: #1 total tags in treatment: 6131180 INFO @ Fri, 15 Feb 2019 07:24:07: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 07:24:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 07:24:07: #1 tags after filtering in treatment: 4993723 INFO @ Fri, 15 Feb 2019 07:24:07: #1 Redundant rate of treatment: 0.19 INFO @ Fri, 15 Feb 2019 07:24:07: #1 finished! INFO @ Fri, 15 Feb 2019 07:24:07: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 07:24:07: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 07:24:07: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 07:24:07: 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 @ Fri, 15 Feb 2019 07:24:07: Process for pairing-model is terminated! cat: DRX123817.20_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `DRX123817.20_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 `DRX123817.20_*.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 `DRX123817.20_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 @ Fri, 15 Feb 2019 07:24:09: #1 tag size is determined as 74 bps INFO @ Fri, 15 Feb 2019 07:24:09: #1 tag size = 74 INFO @ Fri, 15 Feb 2019 07:24:09: #1 total tags in treatment: 6131180 INFO @ Fri, 15 Feb 2019 07:24:09: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 07:24:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 07:24:09: 12000000 INFO @ Fri, 15 Feb 2019 07:24:10: #1 tags after filtering in treatment: 4993723 INFO @ Fri, 15 Feb 2019 07:24:10: #1 Redundant rate of treatment: 0.19 INFO @ Fri, 15 Feb 2019 07:24:10: #1 finished! INFO @ Fri, 15 Feb 2019 07:24:10: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 07:24:10: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 07:24:10: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 07:24:10: 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 @ Fri, 15 Feb 2019 07:24:10: Process for pairing-model is terminated! cat: DRX123817.05_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 `DRX123817.05_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 `DRX123817.05_*.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 `DRX123817.05_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 @ Fri, 15 Feb 2019 07:24:15: #1 tag size is determined as 74 bps INFO @ Fri, 15 Feb 2019 07:24:15: #1 tag size = 74 INFO @ Fri, 15 Feb 2019 07:24:15: #1 total tags in treatment: 6131180 INFO @ Fri, 15 Feb 2019 07:24:15: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 07:24:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 07:24:15: #1 tags after filtering in treatment: 4993723 INFO @ Fri, 15 Feb 2019 07:24:15: #1 Redundant rate of treatment: 0.19 INFO @ Fri, 15 Feb 2019 07:24:15: #1 finished! INFO @ Fri, 15 Feb 2019 07:24:15: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 07:24:15: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 07:24:15: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 07:24:15: 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 @ Fri, 15 Feb 2019 07:24:15: Process for pairing-model is terminated! cat: DRX123817.10_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 `DRX123817.10_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 `DRX123817.10_*.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 `DRX123817.10_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。