Job ID = 11244845 sra ファイルのダウンロード中... Completed: 122345K bytes transferred in 4 seconds (234820K bits/sec), in 1 file. Completed: 313307K bytes transferred in 6 seconds (398579K 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 4424607 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3732404/SRR6759912.sra Written 4424607 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3732404/SRR6759912.sra Read 11009458 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3732404/SRR6759913.sra Written 11009458 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3732404/SRR6759913.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 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: 00:02:12 15434065 reads; of these: 15434065 (100.00%) were unpaired; of these: 8332093 (53.99%) aligned 0 times 5630610 (36.48%) aligned exactly 1 time 1471362 (9.53%) aligned >1 times 46.01% overall alignment rate Time searching: 00:02:12 Overall time: 00:02:12 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] 3384905 / 7101972 = 0.4766 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 22:09:11: # Command line: callpeak -t SRX3732404.bam -f BAM -g 12100000 -n SRX3732404.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3732404.10 # format = BAM # ChIP-seq file = ['SRX3732404.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 22:09:11: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:09:11: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:09:11: # Command line: callpeak -t SRX3732404.bam -f BAM -g 12100000 -n SRX3732404.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3732404.20 # format = BAM # ChIP-seq file = ['SRX3732404.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 22:09:11: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:09:11: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:09:11: # Command line: callpeak -t SRX3732404.bam -f BAM -g 12100000 -n SRX3732404.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3732404.05 # format = BAM # ChIP-seq file = ['SRX3732404.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 22:09:11: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:09:11: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:09:18: 1000000 INFO @ Tue, 09 Oct 2018 22:09:18: 1000000 INFO @ Tue, 09 Oct 2018 22:09:18: 1000000 INFO @ Tue, 09 Oct 2018 22:09:25: 2000000 INFO @ Tue, 09 Oct 2018 22:09:25: 2000000 INFO @ Tue, 09 Oct 2018 22:09:25: 2000000 INFO @ Tue, 09 Oct 2018 22:09:32: 3000000 INFO @ Tue, 09 Oct 2018 22:09:32: 3000000 INFO @ Tue, 09 Oct 2018 22:09:32: 3000000 INFO @ Tue, 09 Oct 2018 22:09:37: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 22:09:37: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 22:09:37: #1 total tags in treatment: 3717067 INFO @ Tue, 09 Oct 2018 22:09:37: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:09:37: #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 22:09:37: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 22:09:37: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 22:09:37: #1 total tags in treatment: 3717067 INFO @ Tue, 09 Oct 2018 22:09:37: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:09:37: #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 22:09:37: #1 tags after filtering in treatment: 3717067 INFO @ Tue, 09 Oct 2018 22:09:37: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:09:37: #1 finished! INFO @ Tue, 09 Oct 2018 22:09:37: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:09:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:09:37: #1 tags after filtering in treatment: 3717067 INFO @ Tue, 09 Oct 2018 22:09:37: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:09:37: #1 finished! INFO @ Tue, 09 Oct 2018 22:09:37: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:09:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:09:37: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 22:09:37: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 22:09:37: #1 total tags in treatment: 3717067 INFO @ Tue, 09 Oct 2018 22:09:37: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:09:37: #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 22:09:37: #1 tags after filtering in treatment: 3717067 INFO @ Tue, 09 Oct 2018 22:09:37: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:09:37: #1 finished! INFO @ Tue, 09 Oct 2018 22:09:37: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:09:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:09:38: #2 number of paired peaks: 29 WARNING @ Tue, 09 Oct 2018 22:09:38: Too few paired peaks (29) 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 22:09:38: Process for pairing-model is terminated! cat: SRX3732404.10_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 @ Tue, 09 Oct 2018 22:09:38: #2 number of paired peaks: 29 WARNING @ Tue, 09 Oct 2018 22:09:38: Too few paired peaks (29) 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 22:09:38: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3732404.10_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 `SRX3732404.10_*.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 `SRX3732404.10_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 cat: SRX3732404.20_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 `SRX3732404.20_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 `SRX3732404.20_*.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 `SRX3732404.20_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 @ Tue, 09 Oct 2018 22:09:38: #2 number of paired peaks: 29 WARNING @ Tue, 09 Oct 2018 22:09:38: Too few paired peaks (29) 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 22:09:38: Process for pairing-model is terminated! cat: SRX3732404.05_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 `SRX3732404.05_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 `SRX3732404.05_*.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 `SRX3732404.05_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。