Job ID = 11634665 sra ファイルのダウンロード中... Completed: 930156K bytes transferred in 11 seconds (692303K 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 47501626 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4092945/SRR7175373.sra Written 47501626 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4092945/SRR7175373.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: 00:07:25 47501626 reads; of these: 47501626 (100.00%) were unpaired; of these: 4677627 (9.85%) aligned 0 times 23281181 (49.01%) aligned exactly 1 time 19542818 (41.14%) aligned >1 times 90.15% overall alignment rate Time searching: 00:07:25 Overall time: 00:07:25 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 20 files... [bam_rmdupse_core] 31570069 / 42823999 = 0.7372 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 10:45:40: # Command line: callpeak -t SRX4092945.bam -f BAM -g 12100000 -n SRX4092945.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4092945.10 # format = BAM # ChIP-seq file = ['SRX4092945.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 10:45:40: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:45:40: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:45:40: # Command line: callpeak -t SRX4092945.bam -f BAM -g 12100000 -n SRX4092945.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4092945.20 # format = BAM # ChIP-seq file = ['SRX4092945.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 10:45:40: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:45:40: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:45:40: # Command line: callpeak -t SRX4092945.bam -f BAM -g 12100000 -n SRX4092945.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4092945.05 # format = BAM # ChIP-seq file = ['SRX4092945.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 10:45:40: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:45:40: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:45:46: 1000000 INFO @ Fri, 15 Feb 2019 10:45:47: 1000000 INFO @ Fri, 15 Feb 2019 10:45:47: 1000000 INFO @ Fri, 15 Feb 2019 10:45:53: 2000000 INFO @ Fri, 15 Feb 2019 10:45:54: 2000000 INFO @ Fri, 15 Feb 2019 10:45:54: 2000000 INFO @ Fri, 15 Feb 2019 10:45:59: 3000000 INFO @ Fri, 15 Feb 2019 10:46:01: 3000000 INFO @ Fri, 15 Feb 2019 10:46:01: 3000000 INFO @ Fri, 15 Feb 2019 10:46:06: 4000000 INFO @ Fri, 15 Feb 2019 10:46:08: 4000000 INFO @ Fri, 15 Feb 2019 10:46:08: 4000000 INFO @ Fri, 15 Feb 2019 10:46:12: 5000000 INFO @ Fri, 15 Feb 2019 10:46:15: 5000000 INFO @ Fri, 15 Feb 2019 10:46:15: 5000000 INFO @ Fri, 15 Feb 2019 10:46:19: 6000000 INFO @ Fri, 15 Feb 2019 10:46:22: 6000000 INFO @ Fri, 15 Feb 2019 10:46:22: 6000000 INFO @ Fri, 15 Feb 2019 10:46:25: 7000000 INFO @ Fri, 15 Feb 2019 10:46:29: 7000000 INFO @ Fri, 15 Feb 2019 10:46:29: 7000000 INFO @ Fri, 15 Feb 2019 10:46:31: 8000000 INFO @ Fri, 15 Feb 2019 10:46:36: 8000000 INFO @ Fri, 15 Feb 2019 10:46:36: 8000000 INFO @ Fri, 15 Feb 2019 10:46:38: 9000000 INFO @ Fri, 15 Feb 2019 10:46:44: 9000000 INFO @ Fri, 15 Feb 2019 10:46:44: 9000000 INFO @ Fri, 15 Feb 2019 10:46:45: 10000000 INFO @ Fri, 15 Feb 2019 10:46:52: 10000000 INFO @ Fri, 15 Feb 2019 10:46:52: 10000000 INFO @ Fri, 15 Feb 2019 10:46:53: 11000000 INFO @ Fri, 15 Feb 2019 10:46:54: #1 tag size is determined as 50 bps INFO @ Fri, 15 Feb 2019 10:46:54: #1 tag size = 50 INFO @ Fri, 15 Feb 2019 10:46:54: #1 total tags in treatment: 11253930 INFO @ Fri, 15 Feb 2019 10:46:54: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:46:54: #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 10:46:55: #1 tags after filtering in treatment: 11253930 INFO @ Fri, 15 Feb 2019 10:46:55: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:46:55: #1 finished! INFO @ Fri, 15 Feb 2019 10:46:55: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:46:55: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:46:55: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:46:55: 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 10:46:55: Process for pairing-model is terminated! cat: SRX4092945.10_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 `SRX4092945.10_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 `SRX4092945.10_*.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 `SRX4092945.10_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 @ Fri, 15 Feb 2019 10:47:01: 11000000 INFO @ Fri, 15 Feb 2019 10:47:01: 11000000 INFO @ Fri, 15 Feb 2019 10:47:03: #1 tag size is determined as 50 bps INFO @ Fri, 15 Feb 2019 10:47:03: #1 tag size = 50 INFO @ Fri, 15 Feb 2019 10:47:03: #1 total tags in treatment: 11253930 INFO @ Fri, 15 Feb 2019 10:47:03: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:47:03: #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 10:47:03: #1 tag size is determined as 50 bps INFO @ Fri, 15 Feb 2019 10:47:03: #1 tag size = 50 INFO @ Fri, 15 Feb 2019 10:47:03: #1 total tags in treatment: 11253930 INFO @ Fri, 15 Feb 2019 10:47:03: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:47:03: #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 10:47:03: #1 tags after filtering in treatment: 11253930 INFO @ Fri, 15 Feb 2019 10:47:03: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:47:03: #1 finished! INFO @ Fri, 15 Feb 2019 10:47:03: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:47:03: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:47:03: #1 tags after filtering in treatment: 11253930 INFO @ Fri, 15 Feb 2019 10:47:03: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:47:03: #1 finished! INFO @ Fri, 15 Feb 2019 10:47:03: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:47:03: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:47:04: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:47:04: 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 10:47:04: Process for pairing-model is terminated! INFO @ Fri, 15 Feb 2019 10:47:04: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:47:04: 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 10:47:04: Process for pairing-model is terminated! cat: SRX4092945.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX4092945.20_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4092945.05_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 `SRX4092945.05_*.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 `SRX4092945.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4092945.20_model.r': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling rm: cannot remove `SRX4092945.20_*.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 `SRX4092945.20_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。