Job ID = 11193032 sra ファイルのダウンロード中... Completed: 83940K bytes transferred in 4 seconds (157888K 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 4197848 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4233809/SRR7360740.sra Written 4197848 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4233809/SRR7360740.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: 00:01:04 4197848 reads; of these: 4197848 (100.00%) were unpaired; of these: 116424 (2.77%) aligned 0 times 3754263 (89.43%) aligned exactly 1 time 327161 (7.79%) aligned >1 times 97.23% overall alignment rate Time searching: 00:01:04 Overall time: 00:01:04 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_rmdupse_core] 502421 / 4081424 = 0.1231 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 @ Sat, 15 Sep 2018 10:50:26: # Command line: callpeak -t SRX4233809.bam -f BAM -g 12100000 -n SRX4233809.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4233809.05 # format = BAM # ChIP-seq file = ['SRX4233809.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 @ Sat, 15 Sep 2018 10:50:26: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:50:26: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:50:26: # Command line: callpeak -t SRX4233809.bam -f BAM -g 12100000 -n SRX4233809.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4233809.10 # format = BAM # ChIP-seq file = ['SRX4233809.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 @ Sat, 15 Sep 2018 10:50:26: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:50:26: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:50:26: # Command line: callpeak -t SRX4233809.bam -f BAM -g 12100000 -n SRX4233809.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4233809.20 # format = BAM # ChIP-seq file = ['SRX4233809.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 @ Sat, 15 Sep 2018 10:50:26: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:50:26: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:50:33: 1000000 INFO @ Sat, 15 Sep 2018 10:50:33: 1000000 INFO @ Sat, 15 Sep 2018 10:50:33: 1000000 INFO @ Sat, 15 Sep 2018 10:50:39: 2000000 INFO @ Sat, 15 Sep 2018 10:50:39: 2000000 INFO @ Sat, 15 Sep 2018 10:50:40: 2000000 INFO @ Sat, 15 Sep 2018 10:50:47: 3000000 INFO @ Sat, 15 Sep 2018 10:50:47: 3000000 INFO @ Sat, 15 Sep 2018 10:50:47: 3000000 INFO @ Sat, 15 Sep 2018 10:50:51: #1 tag size is determined as 49 bps INFO @ Sat, 15 Sep 2018 10:50:51: #1 tag size = 49 INFO @ Sat, 15 Sep 2018 10:50:51: #1 total tags in treatment: 3579003 INFO @ Sat, 15 Sep 2018 10:50:51: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:50:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:50:51: #1 tags after filtering in treatment: 3579003 INFO @ Sat, 15 Sep 2018 10:50:51: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 10:50:51: #1 finished! INFO @ Sat, 15 Sep 2018 10:50:51: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:50:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:50:51: #1 tag size is determined as 49 bps INFO @ Sat, 15 Sep 2018 10:50:51: #1 tag size = 49 INFO @ Sat, 15 Sep 2018 10:50:51: #1 total tags in treatment: 3579003 INFO @ Sat, 15 Sep 2018 10:50:51: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:50:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:50:51: #1 tag size is determined as 49 bps INFO @ Sat, 15 Sep 2018 10:50:51: #1 tag size = 49 INFO @ Sat, 15 Sep 2018 10:50:51: #1 total tags in treatment: 3579003 INFO @ Sat, 15 Sep 2018 10:50:51: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:50:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:50:51: #2 number of paired peaks: 10 WARNING @ Sat, 15 Sep 2018 10:50:51: Too few paired peaks (10) 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 @ Sat, 15 Sep 2018 10:50:51: Process for pairing-model is terminated! INFO @ Sat, 15 Sep 2018 10:50:51: #1 tags after filtering in treatment: 3579003 INFO @ Sat, 15 Sep 2018 10:50:51: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 10:50:51: #1 finished! INFO @ Sat, 15 Sep 2018 10:50:51: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:50:51: #2 looking for paired plus/minus strand peaks... cat: SRX4233809.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Sat, 15 Sep 2018 10:50:51: #1 tags after filtering in treatment: 3579003 INFO @ Sat, 15 Sep 2018 10:50:51: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 10:50:51: #1 finished! INFO @ Sat, 15 Sep 2018 10:50:51: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:50:51: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (0 chroms): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4233809.10_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 `SRX4233809.10_*.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 `SRX4233809.10_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 @ Sat, 15 Sep 2018 10:50:51: #2 number of paired peaks: 10 WARNING @ Sat, 15 Sep 2018 10:50:51: Too few paired peaks (10) 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 @ Sat, 15 Sep 2018 10:50:51: Process for pairing-model is terminated! INFO @ Sat, 15 Sep 2018 10:50:51: #2 number of paired peaks: 10 WARNING @ Sat, 15 Sep 2018 10:50:51: Too few paired peaks (10) 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 @ Sat, 15 Sep 2018 10:50:51: Process for pairing-model is terminated! cat: SRX4233809.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX4233809.05_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) pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4233809.20_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 `SRX4233809.20_*.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 `SRX4233809.20_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 rm: cannot remove `SRX4233809.05_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 `SRX4233809.05_*.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 `SRX4233809.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。