Job ID = 10937752 sra ファイルのダウンロード中... Completed: 890152K bytes transferred in 8 seconds (854135K 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 15705123 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3697530/SRR6724147.sra Written 15705123 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3697530/SRR6724147.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: 00:09:08 15705123 reads; of these: 15705123 (100.00%) were unpaired; of these: 2233219 (14.22%) aligned 0 times 11642457 (74.13%) aligned exactly 1 time 1829447 (11.65%) aligned >1 times 85.78% overall alignment rate Time searching: 00:09:08 Overall time: 00:09:08 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] 5685901 / 13471904 = 0.4221 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, 10 Aug 2018 03:18:03: # Command line: callpeak -t SRX3697530.bam -f BAM -g 12100000 -n SRX3697530.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3697530.20 # format = BAM # ChIP-seq file = ['SRX3697530.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, 10 Aug 2018 03:18:03: # Command line: callpeak -t SRX3697530.bam -f BAM -g 12100000 -n SRX3697530.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3697530.05 # format = BAM # ChIP-seq file = ['SRX3697530.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, 10 Aug 2018 03:18:03: #1 read tag files... INFO @ Fri, 10 Aug 2018 03:18:03: #1 read tag files... INFO @ Fri, 10 Aug 2018 03:18:03: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 03:18:03: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 03:18:03: # Command line: callpeak -t SRX3697530.bam -f BAM -g 12100000 -n SRX3697530.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3697530.10 # format = BAM # ChIP-seq file = ['SRX3697530.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, 10 Aug 2018 03:18:03: #1 read tag files... INFO @ Fri, 10 Aug 2018 03:18:03: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 03:18:20: 1000000 INFO @ Fri, 10 Aug 2018 03:18:20: 1000000 INFO @ Fri, 10 Aug 2018 03:18:20: 1000000 INFO @ Fri, 10 Aug 2018 03:18:36: 2000000 INFO @ Fri, 10 Aug 2018 03:18:36: 2000000 INFO @ Fri, 10 Aug 2018 03:18:37: 2000000 INFO @ Fri, 10 Aug 2018 03:18:52: 3000000 INFO @ Fri, 10 Aug 2018 03:18:52: 3000000 INFO @ Fri, 10 Aug 2018 03:18:53: 3000000 INFO @ Fri, 10 Aug 2018 03:19:08: 4000000 INFO @ Fri, 10 Aug 2018 03:19:08: 4000000 INFO @ Fri, 10 Aug 2018 03:19:10: 4000000 INFO @ Fri, 10 Aug 2018 03:19:25: 5000000 INFO @ Fri, 10 Aug 2018 03:19:25: 5000000 INFO @ Fri, 10 Aug 2018 03:19:26: 5000000 INFO @ Fri, 10 Aug 2018 03:19:41: 6000000 INFO @ Fri, 10 Aug 2018 03:19:41: 6000000 INFO @ Fri, 10 Aug 2018 03:19:43: 6000000 INFO @ Fri, 10 Aug 2018 03:19:58: 7000000 INFO @ Fri, 10 Aug 2018 03:19:58: 7000000 INFO @ Fri, 10 Aug 2018 03:20:00: 7000000 INFO @ Fri, 10 Aug 2018 03:20:11: #1 tag size is determined as 150 bps INFO @ Fri, 10 Aug 2018 03:20:11: #1 tag size is determined as 150 bps INFO @ Fri, 10 Aug 2018 03:20:11: #1 tag size = 150 INFO @ Fri, 10 Aug 2018 03:20:11: #1 tag size = 150 INFO @ Fri, 10 Aug 2018 03:20:11: #1 total tags in treatment: 7786003 INFO @ Fri, 10 Aug 2018 03:20:11: #1 total tags in treatment: 7786003 INFO @ Fri, 10 Aug 2018 03:20:11: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 03:20:11: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 03:20:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 03:20:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 03:20:11: #1 tags after filtering in treatment: 7786003 INFO @ Fri, 10 Aug 2018 03:20:11: #1 tags after filtering in treatment: 7786003 INFO @ Fri, 10 Aug 2018 03:20:11: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 03:20:11: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 03:20:11: #1 finished! INFO @ Fri, 10 Aug 2018 03:20:11: #1 finished! INFO @ Fri, 10 Aug 2018 03:20:11: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 03:20:11: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 03:20:11: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 03:20:11: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 03:20:12: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 03:20:12: 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, 10 Aug 2018 03:20:12: Process for pairing-model is terminated! cat: SRX3697530.05_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 `SRX3697530.05_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 `SRX3697530.05_*.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 `SRX3697530.05_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, 10 Aug 2018 03:20:12: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 03:20:12: 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, 10 Aug 2018 03:20:12: Process for pairing-model is terminated! cat: SRX3697530.20_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 `SRX3697530.20_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 `SRX3697530.20_*.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 `SRX3697530.20_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, 10 Aug 2018 03:20:14: #1 tag size is determined as 150 bps INFO @ Fri, 10 Aug 2018 03:20:14: #1 tag size = 150 INFO @ Fri, 10 Aug 2018 03:20:14: #1 total tags in treatment: 7786003 INFO @ Fri, 10 Aug 2018 03:20:14: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 03:20:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 03:20:14: #1 tags after filtering in treatment: 7786003 INFO @ Fri, 10 Aug 2018 03:20:14: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 03:20:14: #1 finished! INFO @ Fri, 10 Aug 2018 03:20:14: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 03:20:14: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 03:20:14: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 03:20:14: 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 @ Fri, 10 Aug 2018 03:20:14: Process for pairing-model is terminated! cat: SRX3697530.10_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 `SRX3697530.10_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 `SRX3697530.10_*.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 `SRX3697530.10_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。