Job ID = 11162574 sra ファイルのダウンロード中... Completed: 793546K bytes transferred in 9 seconds (717067K 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 24141825 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585188/SRR6495888.sra Written 24141825 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585188/SRR6495888.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: 00:04:29 24141825 reads; of these: 24141825 (100.00%) were unpaired; of these: 2364288 (9.79%) aligned 0 times 18975694 (78.60%) aligned exactly 1 time 2801843 (11.61%) aligned >1 times 90.21% overall alignment rate Time searching: 00:04:29 Overall time: 00:04:29 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 12 files... [bam_rmdupse_core] 9558218 / 21777537 = 0.4389 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 10:16:08: # Command line: callpeak -t SRX3585188.bam -f BAM -g 12100000 -n SRX3585188.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3585188.05 # format = BAM # ChIP-seq file = ['SRX3585188.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 10:16:08: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:16:08: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:16:08: # Command line: callpeak -t SRX3585188.bam -f BAM -g 12100000 -n SRX3585188.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3585188.20 # format = BAM # ChIP-seq file = ['SRX3585188.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 10:16:08: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:16:08: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:16:08: # Command line: callpeak -t SRX3585188.bam -f BAM -g 12100000 -n SRX3585188.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3585188.10 # format = BAM # ChIP-seq file = ['SRX3585188.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 10:16:08: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:16:08: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:16:15: 1000000 INFO @ Wed, 05 Sep 2018 10:16:16: 1000000 INFO @ Wed, 05 Sep 2018 10:16:16: 1000000 INFO @ Wed, 05 Sep 2018 10:16:23: 2000000 INFO @ Wed, 05 Sep 2018 10:16:25: 2000000 INFO @ Wed, 05 Sep 2018 10:16:25: 2000000 INFO @ Wed, 05 Sep 2018 10:16:30: 3000000 INFO @ Wed, 05 Sep 2018 10:16:33: 3000000 INFO @ Wed, 05 Sep 2018 10:16:33: 3000000 INFO @ Wed, 05 Sep 2018 10:16:38: 4000000 INFO @ Wed, 05 Sep 2018 10:16:42: 4000000 INFO @ Wed, 05 Sep 2018 10:16:42: 4000000 INFO @ Wed, 05 Sep 2018 10:16:46: 5000000 INFO @ Wed, 05 Sep 2018 10:16:50: 5000000 INFO @ Wed, 05 Sep 2018 10:16:50: 5000000 INFO @ Wed, 05 Sep 2018 10:16:53: 6000000 INFO @ Wed, 05 Sep 2018 10:16:58: 6000000 INFO @ Wed, 05 Sep 2018 10:16:58: 6000000 INFO @ Wed, 05 Sep 2018 10:17:00: 7000000 INFO @ Wed, 05 Sep 2018 10:17:06: 8000000 INFO @ Wed, 05 Sep 2018 10:17:06: 7000000 INFO @ Wed, 05 Sep 2018 10:17:06: 7000000 INFO @ Wed, 05 Sep 2018 10:17:13: 9000000 INFO @ Wed, 05 Sep 2018 10:17:13: 8000000 INFO @ Wed, 05 Sep 2018 10:17:13: 8000000 INFO @ Wed, 05 Sep 2018 10:17:19: 10000000 INFO @ Wed, 05 Sep 2018 10:17:20: 9000000 INFO @ Wed, 05 Sep 2018 10:17:20: 9000000 INFO @ Wed, 05 Sep 2018 10:17:26: 11000000 INFO @ Wed, 05 Sep 2018 10:17:27: 10000000 INFO @ Wed, 05 Sep 2018 10:17:27: 10000000 INFO @ Wed, 05 Sep 2018 10:17:32: 12000000 INFO @ Wed, 05 Sep 2018 10:17:34: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:17:34: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:17:34: #1 total tags in treatment: 12219319 INFO @ Wed, 05 Sep 2018 10:17:34: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:17:34: #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 10:17:34: #1 tags after filtering in treatment: 12219319 INFO @ Wed, 05 Sep 2018 10:17:34: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:17:34: #1 finished! INFO @ Wed, 05 Sep 2018 10:17:34: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:17:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:17:34: 11000000 INFO @ Wed, 05 Sep 2018 10:17:34: 11000000 INFO @ Wed, 05 Sep 2018 10:17:35: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:17:35: 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 10:17:35: Process for pairing-model is terminated! cat: SRX3585188.05_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): 5 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585188.05_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 `SRX3585188.05_*.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 `SRX3585188.05_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 10:17:41: 12000000 INFO @ Wed, 05 Sep 2018 10:17:41: 12000000 INFO @ Wed, 05 Sep 2018 10:17:42: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:17:42: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:17:42: #1 total tags in treatment: 12219319 INFO @ Wed, 05 Sep 2018 10:17:42: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:17:42: #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 10:17:42: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:17:42: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:17:42: #1 total tags in treatment: 12219319 INFO @ Wed, 05 Sep 2018 10:17:42: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:17:42: #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 10:17:43: #1 tags after filtering in treatment: 12219319 INFO @ Wed, 05 Sep 2018 10:17:43: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:17:43: #1 finished! INFO @ Wed, 05 Sep 2018 10:17:43: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:17:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:17:43: #1 tags after filtering in treatment: 12219319 INFO @ Wed, 05 Sep 2018 10:17:43: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:17:43: #1 finished! INFO @ Wed, 05 Sep 2018 10:17:43: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:17:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:17:43: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:17:43: 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 @ Wed, 05 Sep 2018 10:17:43: Process for pairing-model is terminated! INFO @ Wed, 05 Sep 2018 10:17:43: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:17:43: 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 @ Wed, 05 Sep 2018 10:17:43: Process for pairing-model is terminated! cat: SRX3585188.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX3585188.20_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) pass1 - making usageList (0 chroms): 4 millis rm: cannot remove `SRX3585188.10_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 `SRX3585188.10_*.xls'needLargeMem: trying to allocate 0 bytes (limit: 17179869184): 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 `SRX3585188.10_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 rm: cannot remove `SRX3585188.20_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 `SRX3585188.20_*.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 `SRX3585188.20_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。