Job ID = 11245101 sra ファイルのダウンロード中... Completed: 445907K bytes transferred in 7 seconds (494150K 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 24589012 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4668657/SRR7817177.sra Written 24589012 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4668657/SRR7817177.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: 00:04:09 24589012 reads; of these: 24589012 (100.00%) were unpaired; of these: 1772615 (7.21%) aligned 0 times 21167333 (86.08%) aligned exactly 1 time 1649064 (6.71%) aligned >1 times 92.79% overall alignment rate Time searching: 00:04:09 Overall time: 00:04:09 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] 12641543 / 22816397 = 0.5541 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 @ Tue, 09 Oct 2018 23:32:08: # Command line: callpeak -t SRX4668657.bam -f BAM -g 12100000 -n SRX4668657.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4668657.20 # format = BAM # ChIP-seq file = ['SRX4668657.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 @ Tue, 09 Oct 2018 23:32:08: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:32:08: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:32:08: # Command line: callpeak -t SRX4668657.bam -f BAM -g 12100000 -n SRX4668657.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4668657.05 # format = BAM # ChIP-seq file = ['SRX4668657.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 @ Tue, 09 Oct 2018 23:32:08: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:32:08: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:32:08: # Command line: callpeak -t SRX4668657.bam -f BAM -g 12100000 -n SRX4668657.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4668657.10 # format = BAM # ChIP-seq file = ['SRX4668657.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 @ Tue, 09 Oct 2018 23:32:08: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:32:08: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:32:15: 1000000 INFO @ Tue, 09 Oct 2018 23:32:15: 1000000 INFO @ Tue, 09 Oct 2018 23:32:15: 1000000 INFO @ Tue, 09 Oct 2018 23:32:21: 2000000 INFO @ Tue, 09 Oct 2018 23:32:22: 2000000 INFO @ Tue, 09 Oct 2018 23:32:22: 2000000 INFO @ Tue, 09 Oct 2018 23:32:28: 3000000 INFO @ Tue, 09 Oct 2018 23:32:29: 3000000 INFO @ Tue, 09 Oct 2018 23:32:29: 3000000 INFO @ Tue, 09 Oct 2018 23:32:35: 4000000 INFO @ Tue, 09 Oct 2018 23:32:36: 4000000 INFO @ Tue, 09 Oct 2018 23:32:36: 4000000 INFO @ Tue, 09 Oct 2018 23:32:42: 5000000 INFO @ Tue, 09 Oct 2018 23:32:44: 5000000 INFO @ Tue, 09 Oct 2018 23:32:44: 5000000 INFO @ Tue, 09 Oct 2018 23:32:49: 6000000 INFO @ Tue, 09 Oct 2018 23:32:51: 6000000 INFO @ Tue, 09 Oct 2018 23:32:51: 6000000 INFO @ Tue, 09 Oct 2018 23:32:56: 7000000 INFO @ Tue, 09 Oct 2018 23:32:58: 7000000 INFO @ Tue, 09 Oct 2018 23:32:58: 7000000 INFO @ Tue, 09 Oct 2018 23:33:04: 8000000 INFO @ Tue, 09 Oct 2018 23:33:05: 8000000 INFO @ Tue, 09 Oct 2018 23:33:05: 8000000 INFO @ Tue, 09 Oct 2018 23:33:11: 9000000 INFO @ Tue, 09 Oct 2018 23:33:13: 9000000 INFO @ Tue, 09 Oct 2018 23:33:13: 9000000 INFO @ Tue, 09 Oct 2018 23:33:18: 10000000 INFO @ Tue, 09 Oct 2018 23:33:19: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 23:33:19: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 23:33:19: #1 total tags in treatment: 10174854 INFO @ Tue, 09 Oct 2018 23:33:19: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:33:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:33:19: #1 tags after filtering in treatment: 10174854 INFO @ Tue, 09 Oct 2018 23:33:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 23:33:19: #1 finished! INFO @ Tue, 09 Oct 2018 23:33:19: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:33:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:33:20: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 23:33:20: 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 @ Tue, 09 Oct 2018 23:33:20: Process for pairing-model is terminated! cat: SRX4668657.10_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): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4668657.10_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 `SRX4668657.10_*.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 `SRX4668657.10_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 @ Tue, 09 Oct 2018 23:33:20: 10000000 INFO @ Tue, 09 Oct 2018 23:33:20: 10000000 INFO @ Tue, 09 Oct 2018 23:33:21: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 23:33:21: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 23:33:21: #1 total tags in treatment: 10174854 INFO @ Tue, 09 Oct 2018 23:33:21: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:33:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:33:21: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 23:33:21: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 23:33:21: #1 total tags in treatment: 10174854 INFO @ Tue, 09 Oct 2018 23:33:21: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:33:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:33:21: #1 tags after filtering in treatment: 10174854 INFO @ Tue, 09 Oct 2018 23:33:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 23:33:21: #1 finished! INFO @ Tue, 09 Oct 2018 23:33:21: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:33:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:33:21: #1 tags after filtering in treatment: 10174854 INFO @ Tue, 09 Oct 2018 23:33:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 23:33:21: #1 finished! INFO @ Tue, 09 Oct 2018 23:33:21: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:33:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:33:22: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 23:33:22: 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 @ Tue, 09 Oct 2018 23:33:22: Process for pairing-model is terminated! INFO @ Tue, 09 Oct 2018 23:33:22: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 23:33:22: 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 @ Tue, 09 Oct 2018 23:33:22: Process for pairing-model is terminated! cat: SRX4668657.05_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: SRX4668657.20_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 `SRX4668657.05_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 `SRX4668657.05_*.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 `SRX4668657.05_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4668657.20_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 `SRX4668657.20_*.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 `SRX4668657.20_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。