Job ID = 9161797 sra ファイルのダウンロード中... Completed: 1784946K bytes transferred in 20 seconds (720380K 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 30528552 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1044183/SRR2045664.sra Written 30528552 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: 00:18:33 30528552 reads; of these: 30528552 (100.00%) were paired; of these: 11634390 (38.11%) aligned concordantly 0 times 16511901 (54.09%) aligned concordantly exactly 1 time 2382261 (7.80%) aligned concordantly >1 times ---- 11634390 pairs aligned concordantly 0 times; of these: 405833 (3.49%) aligned discordantly 1 time ---- 11228557 pairs aligned 0 times concordantly or discordantly; of these: 22457114 mates make up the pairs; of these: 22023787 (98.07%) aligned 0 times 245061 (1.09%) aligned exactly 1 time 188266 (0.84%) aligned >1 times 63.93% overall alignment rate Time searching: 00:18:33 Overall time: 00:18:33 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 16 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] 11412840 / 19140681 = 0.5963 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 05:05:57: # Command line: callpeak -t SRX1044183.bam -f BAM -g 12100000 -n SRX1044183.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1044183.20 # format = BAM # ChIP-seq file = ['SRX1044183.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 05:05:57: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:05:57: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:05:57: # Command line: callpeak -t SRX1044183.bam -f BAM -g 12100000 -n SRX1044183.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1044183.05 # format = BAM # ChIP-seq file = ['SRX1044183.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 05:05:57: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:05:57: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:05:57: # Command line: callpeak -t SRX1044183.bam -f BAM -g 12100000 -n SRX1044183.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1044183.10 # format = BAM # ChIP-seq file = ['SRX1044183.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 05:05:57: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:05:57: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:06:04: 1000000 INFO @ Wed, 28 Jun 2017 05:06:04: 1000000 INFO @ Wed, 28 Jun 2017 05:06:04: 1000000 INFO @ Wed, 28 Jun 2017 05:06:10: 2000000 INFO @ Wed, 28 Jun 2017 05:06:11: 2000000 INFO @ Wed, 28 Jun 2017 05:06:11: 2000000 INFO @ Wed, 28 Jun 2017 05:06:17: 3000000 INFO @ Wed, 28 Jun 2017 05:06:19: 3000000 INFO @ Wed, 28 Jun 2017 05:06:19: 3000000 INFO @ Wed, 28 Jun 2017 05:06:23: 4000000 INFO @ Wed, 28 Jun 2017 05:06:26: 4000000 INFO @ Wed, 28 Jun 2017 05:06:26: 4000000 INFO @ Wed, 28 Jun 2017 05:06:30: 5000000 INFO @ Wed, 28 Jun 2017 05:06:33: 5000000 INFO @ Wed, 28 Jun 2017 05:06:33: 5000000 INFO @ Wed, 28 Jun 2017 05:06:36: 6000000 INFO @ Wed, 28 Jun 2017 05:06:39: 6000000 INFO @ Wed, 28 Jun 2017 05:06:40: 6000000 INFO @ Wed, 28 Jun 2017 05:06:42: 7000000 INFO @ Wed, 28 Jun 2017 05:06:46: 7000000 INFO @ Wed, 28 Jun 2017 05:06:46: 7000000 INFO @ Wed, 28 Jun 2017 05:06:48: 8000000 INFO @ Wed, 28 Jun 2017 05:06:53: 8000000 INFO @ Wed, 28 Jun 2017 05:06:53: 8000000 INFO @ Wed, 28 Jun 2017 05:06:55: 9000000 INFO @ Wed, 28 Jun 2017 05:07:00: 9000000 INFO @ Wed, 28 Jun 2017 05:07:00: 9000000 INFO @ Wed, 28 Jun 2017 05:07:01: 10000000 INFO @ Wed, 28 Jun 2017 05:07:07: 10000000 INFO @ Wed, 28 Jun 2017 05:07:07: 10000000 INFO @ Wed, 28 Jun 2017 05:07:08: 11000000 INFO @ Wed, 28 Jun 2017 05:07:14: 12000000 INFO @ Wed, 28 Jun 2017 05:07:14: 11000000 INFO @ Wed, 28 Jun 2017 05:07:15: 11000000 INFO @ Wed, 28 Jun 2017 05:07:20: 13000000 INFO @ Wed, 28 Jun 2017 05:07:22: 12000000 INFO @ Wed, 28 Jun 2017 05:07:22: 12000000 INFO @ Wed, 28 Jun 2017 05:07:28: 14000000 INFO @ Wed, 28 Jun 2017 05:07:28: 13000000 INFO @ Wed, 28 Jun 2017 05:07:29: 13000000 INFO @ Wed, 28 Jun 2017 05:07:35: 15000000 INFO @ Wed, 28 Jun 2017 05:07:35: 14000000 INFO @ Wed, 28 Jun 2017 05:07:36: 14000000 INFO @ Wed, 28 Jun 2017 05:07:42: 15000000 INFO @ Wed, 28 Jun 2017 05:07:42: 16000000 INFO @ Wed, 28 Jun 2017 05:07:43: 15000000 INFO @ Wed, 28 Jun 2017 05:07:43: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:07:43: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:07:43: #1 total tags in treatment: 7632927 INFO @ Wed, 28 Jun 2017 05:07:43: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:07:43: #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 05:07:43: #1 tags after filtering in treatment: 5238934 INFO @ Wed, 28 Jun 2017 05:07:43: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 28 Jun 2017 05:07:43: #1 finished! INFO @ Wed, 28 Jun 2017 05:07:43: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:07:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:07:44: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:07:44: 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 05:07:44: Process for pairing-model is terminated! cat: SRX1044183.05_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 `SRX1044183.05_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 `SRX1044183.05_*.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 `SRX1044183.05_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 @ Wed, 28 Jun 2017 05:07:48: 16000000 INFO @ Wed, 28 Jun 2017 05:07:49: 16000000 INFO @ Wed, 28 Jun 2017 05:07:50: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:07:50: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:07:50: #1 total tags in treatment: 7632927 INFO @ Wed, 28 Jun 2017 05:07:50: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:07:50: #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 05:07:50: #1 tags after filtering in treatment: 5238934 INFO @ Wed, 28 Jun 2017 05:07:50: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 28 Jun 2017 05:07:50: #1 finished! INFO @ Wed, 28 Jun 2017 05:07:50: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:07:50: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:07:50: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:07:50: 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 @ Wed, 28 Jun 2017 05:07:50: Process for pairing-model is terminated! cat: SRX1044183.10_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 `SRX1044183.10_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 `SRX1044183.10_*.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 `SRX1044183.10_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 @ Wed, 28 Jun 2017 05:07:51: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:07:51: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:07:51: #1 total tags in treatment: 7632927 INFO @ Wed, 28 Jun 2017 05:07:51: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:07:51: #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 05:07:51: #1 tags after filtering in treatment: 5238934 INFO @ Wed, 28 Jun 2017 05:07:51: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 28 Jun 2017 05:07:51: #1 finished! INFO @ Wed, 28 Jun 2017 05:07:51: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:07:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:07:51: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:07:51: 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 05:07:51: Process for pairing-model is terminated! cat: SRX1044183.20_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 `SRX1044183.20_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 `SRX1044183.20_*.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 `SRX1044183.20_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。