Job ID = 11162565 sra ファイルのダウンロード中... Completed: 711218K bytes transferred in 9 seconds (611929K 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: SINGLE fastq に変換中... Read 22769708 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585180/SRR6495880.sra Written 22769708 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585180/SRR6495880.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: 00:04:19 22769708 reads; of these: 22769708 (100.00%) were unpaired; of these: 3939106 (17.30%) aligned 0 times 16622130 (73.00%) aligned exactly 1 time 2208472 (9.70%) aligned >1 times 82.70% overall alignment rate Time searching: 00:04:19 Overall time: 00:04:19 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_rmdupse_core] 7613020 / 18830602 = 0.4043 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, 05 Sep 2018 10:08:18: # Command line: callpeak -t SRX3585180.bam -f BAM -g 12100000 -n SRX3585180.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3585180.20 # format = BAM # ChIP-seq file = ['SRX3585180.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, 05 Sep 2018 10:08:18: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:08:18: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:08:18: # Command line: callpeak -t SRX3585180.bam -f BAM -g 12100000 -n SRX3585180.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3585180.05 # format = BAM # ChIP-seq file = ['SRX3585180.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, 05 Sep 2018 10:08:18: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:08:18: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:08:18: # Command line: callpeak -t SRX3585180.bam -f BAM -g 12100000 -n SRX3585180.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3585180.10 # format = BAM # ChIP-seq file = ['SRX3585180.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, 05 Sep 2018 10:08:18: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:08:18: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:08:25: 1000000 INFO @ Wed, 05 Sep 2018 10:08:26: 1000000 INFO @ Wed, 05 Sep 2018 10:08:26: 1000000 INFO @ Wed, 05 Sep 2018 10:08:33: 2000000 INFO @ Wed, 05 Sep 2018 10:08:34: 2000000 INFO @ Wed, 05 Sep 2018 10:08:34: 2000000 INFO @ Wed, 05 Sep 2018 10:08:40: 3000000 INFO @ Wed, 05 Sep 2018 10:08:42: 3000000 INFO @ Wed, 05 Sep 2018 10:08:42: 3000000 INFO @ Wed, 05 Sep 2018 10:08:48: 4000000 INFO @ Wed, 05 Sep 2018 10:08:50: 4000000 INFO @ Wed, 05 Sep 2018 10:08:50: 4000000 INFO @ Wed, 05 Sep 2018 10:08:55: 5000000 INFO @ Wed, 05 Sep 2018 10:08:58: 5000000 INFO @ Wed, 05 Sep 2018 10:08:58: 5000000 INFO @ Wed, 05 Sep 2018 10:09:02: 6000000 INFO @ Wed, 05 Sep 2018 10:09:05: 6000000 INFO @ Wed, 05 Sep 2018 10:09:05: 6000000 INFO @ Wed, 05 Sep 2018 10:09:10: 7000000 INFO @ Wed, 05 Sep 2018 10:09:13: 7000000 INFO @ Wed, 05 Sep 2018 10:09:13: 7000000 INFO @ Wed, 05 Sep 2018 10:09:17: 8000000 INFO @ Wed, 05 Sep 2018 10:09:21: 8000000 INFO @ Wed, 05 Sep 2018 10:09:21: 8000000 INFO @ Wed, 05 Sep 2018 10:09:24: 9000000 INFO @ Wed, 05 Sep 2018 10:09:29: 9000000 INFO @ Wed, 05 Sep 2018 10:09:29: 9000000 INFO @ Wed, 05 Sep 2018 10:09:33: 10000000 INFO @ Wed, 05 Sep 2018 10:09:37: 10000000 INFO @ Wed, 05 Sep 2018 10:09:37: 10000000 INFO @ Wed, 05 Sep 2018 10:09:41: 11000000 INFO @ Wed, 05 Sep 2018 10:09:43: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:09:43: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:09:43: #1 total tags in treatment: 11217582 INFO @ Wed, 05 Sep 2018 10:09:43: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:09:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:09:43: #1 tags after filtering in treatment: 11217582 INFO @ Wed, 05 Sep 2018 10:09:43: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:09:43: #1 finished! INFO @ Wed, 05 Sep 2018 10:09:43: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:09:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:09:44: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:09:44: 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, 05 Sep 2018 10:09:44: Process for pairing-model is terminated! cat: SRX3585180.20_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 `SRX3585180.20_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 `SRX3585180.20_*.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 `SRX3585180.20_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 @ Wed, 05 Sep 2018 10:09:45: 11000000 INFO @ Wed, 05 Sep 2018 10:09:45: 11000000 INFO @ Wed, 05 Sep 2018 10:09:46: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:09:46: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:09:46: #1 total tags in treatment: 11217582 INFO @ Wed, 05 Sep 2018 10:09:46: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:09:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:09:47: #1 tags after filtering in treatment: 11217582 INFO @ Wed, 05 Sep 2018 10:09:47: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:09:47: #1 finished! INFO @ Wed, 05 Sep 2018 10:09:47: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:09:47: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:09:47: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:09:47: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:09:47: #1 total tags in treatment: 11217582 INFO @ Wed, 05 Sep 2018 10:09:47: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:09:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:09:47: #1 tags after filtering in treatment: 11217582 INFO @ Wed, 05 Sep 2018 10:09:47: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:09:47: #1 finished! INFO @ Wed, 05 Sep 2018 10:09:47: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:09:47: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:09:47: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:09:47: 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, 05 Sep 2018 10:09:47: Process for pairing-model is terminated! cat: SRX3585180.05_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 `SRX3585180.05_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 `SRX3585180.05_*.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 `SRX3585180.05_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, 05 Sep 2018 10:09:48: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:09:48: 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, 05 Sep 2018 10:09:48: Process for pairing-model is terminated! cat: SRX3585180.10_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 `SRX3585180.10_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 `SRX3585180.10_*.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 `SRX3585180.10_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。