Job ID = 10608949 sra ファイルのダウンロード中... Completed: 507840K bytes transferred in 29 seconds (141878K 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... Written 12680133 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2737498/SRR5448631.sra Written 12680133 spots total 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: 00:03:19 12680133 reads; of these: 12680133 (100.00%) were unpaired; of these: 1724810 (13.60%) aligned 0 times 8673418 (68.40%) aligned exactly 1 time 2281905 (18.00%) aligned >1 times 86.40% overall alignment rate Time searching: 00:03:19 Overall time: 00:03:19 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 8 files... [bam_rmdupse_core] 3705588 / 10955323 = 0.3382 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 @ Thu, 03 May 2018 22:53:51: # Command line: callpeak -t SRX2737498.bam -f BAM -g 12100000 -n SRX2737498.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2737498.05 # format = BAM # ChIP-seq file = ['SRX2737498.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 @ Thu, 03 May 2018 22:53:51: #1 read tag files... INFO @ Thu, 03 May 2018 22:53:51: #1 read treatment tags... INFO @ Thu, 03 May 2018 22:53:51: # Command line: callpeak -t SRX2737498.bam -f BAM -g 12100000 -n SRX2737498.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2737498.20 # format = BAM # ChIP-seq file = ['SRX2737498.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 @ Thu, 03 May 2018 22:53:51: #1 read tag files... INFO @ Thu, 03 May 2018 22:53:51: #1 read treatment tags... INFO @ Thu, 03 May 2018 22:53:51: # Command line: callpeak -t SRX2737498.bam -f BAM -g 12100000 -n SRX2737498.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2737498.10 # format = BAM # ChIP-seq file = ['SRX2737498.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 @ Thu, 03 May 2018 22:53:51: #1 read tag files... INFO @ Thu, 03 May 2018 22:53:51: #1 read treatment tags... INFO @ Thu, 03 May 2018 22:54:00: 1000000 INFO @ Thu, 03 May 2018 22:54:01: 1000000 INFO @ Thu, 03 May 2018 22:54:01: 1000000 INFO @ Thu, 03 May 2018 22:54:09: 2000000 INFO @ Thu, 03 May 2018 22:54:11: 2000000 INFO @ Thu, 03 May 2018 22:54:11: 2000000 INFO @ Thu, 03 May 2018 22:54:19: 3000000 INFO @ Thu, 03 May 2018 22:54:21: 3000000 INFO @ Thu, 03 May 2018 22:54:21: 3000000 INFO @ Thu, 03 May 2018 22:54:28: 4000000 INFO @ Thu, 03 May 2018 22:54:31: 4000000 INFO @ Thu, 03 May 2018 22:54:31: 4000000 INFO @ Thu, 03 May 2018 22:54:38: 5000000 INFO @ Thu, 03 May 2018 22:54:41: 5000000 INFO @ Thu, 03 May 2018 22:54:41: 5000000 INFO @ Thu, 03 May 2018 22:54:47: 6000000 INFO @ Thu, 03 May 2018 22:54:51: 6000000 INFO @ Thu, 03 May 2018 22:54:51: 6000000 INFO @ Thu, 03 May 2018 22:54:57: 7000000 INFO @ Thu, 03 May 2018 22:54:59: #1 tag size is determined as 101 bps INFO @ Thu, 03 May 2018 22:54:59: #1 tag size = 101 INFO @ Thu, 03 May 2018 22:54:59: #1 total tags in treatment: 7249735 INFO @ Thu, 03 May 2018 22:54:59: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 22:54:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 22:54:59: #1 tags after filtering in treatment: 7249735 INFO @ Thu, 03 May 2018 22:54:59: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 22:54:59: #1 finished! INFO @ Thu, 03 May 2018 22:54:59: #2 Build Peak Model... INFO @ Thu, 03 May 2018 22:54:59: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 22:54:59: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 22:54:59: 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 @ Thu, 03 May 2018 22:54:59: Process for pairing-model is terminated! cat: SRX2737498.20_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2737498.20_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 `SRX2737498.20_*.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 `SRX2737498.20_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 @ Thu, 03 May 2018 22:55:01: 7000000 INFO @ Thu, 03 May 2018 22:55:01: 7000000 INFO @ Thu, 03 May 2018 22:55:03: #1 tag size is determined as 101 bps INFO @ Thu, 03 May 2018 22:55:03: #1 tag size = 101 INFO @ Thu, 03 May 2018 22:55:03: #1 total tags in treatment: 7249735 INFO @ Thu, 03 May 2018 22:55:03: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 22:55:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 22:55:03: #1 tags after filtering in treatment: 7249735 INFO @ Thu, 03 May 2018 22:55:03: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 22:55:03: #1 finished! INFO @ Thu, 03 May 2018 22:55:03: #2 Build Peak Model... INFO @ Thu, 03 May 2018 22:55:03: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 22:55:03: #1 tag size is determined as 101 bps INFO @ Thu, 03 May 2018 22:55:03: #1 tag size = 101 INFO @ Thu, 03 May 2018 22:55:03: #1 total tags in treatment: 7249735 INFO @ Thu, 03 May 2018 22:55:03: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 22:55:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 22:55:03: #1 tags after filtering in treatment: 7249735 INFO @ Thu, 03 May 2018 22:55:03: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 22:55:03: #1 finished! INFO @ Thu, 03 May 2018 22:55:03: #2 Build Peak Model... INFO @ Thu, 03 May 2018 22:55:03: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 22:55:04: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 22:55:04: 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 @ Thu, 03 May 2018 22:55:04: Process for pairing-model is terminated! cat: SRX2737498.10_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 `SRX2737498.10_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 `SRX2737498.10_*.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 `SRX2737498.10_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 @ Thu, 03 May 2018 22:55:04: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 22:55:04: 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 @ Thu, 03 May 2018 22:55:04: Process for pairing-model is terminated! cat: SRX2737498.05_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2737498.05_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 `SRX2737498.05_*.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 `SRX2737498.05_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。