Job ID = 11634630 sra ファイルのダウンロード中... Completed: 283760K bytes transferred in 5 seconds (420292K 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 10845948 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3933731/SRR7000971.sra Written 10845948 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3933731/SRR7000971.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: 00:02:02 10845948 reads; of these: 10845948 (100.00%) were unpaired; of these: 582047 (5.37%) aligned 0 times 9165858 (84.51%) aligned exactly 1 time 1098043 (10.12%) aligned >1 times 94.63% overall alignment rate Time searching: 00:02:02 Overall time: 00:02:02 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] 5428646 / 10263901 = 0.5289 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 10:21:09: # Command line: callpeak -t SRX3933731.bam -f BAM -g 12100000 -n SRX3933731.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3933731.05 # format = BAM # ChIP-seq file = ['SRX3933731.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 10:21:09: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:21:09: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:21:09: # Command line: callpeak -t SRX3933731.bam -f BAM -g 12100000 -n SRX3933731.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3933731.10 # format = BAM # ChIP-seq file = ['SRX3933731.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 10:21:09: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:21:09: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:21:09: # Command line: callpeak -t SRX3933731.bam -f BAM -g 12100000 -n SRX3933731.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3933731.20 # format = BAM # ChIP-seq file = ['SRX3933731.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 10:21:09: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:21:09: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:21:15: 1000000 INFO @ Fri, 15 Feb 2019 10:21:16: 1000000 INFO @ Fri, 15 Feb 2019 10:21:16: 1000000 INFO @ Fri, 15 Feb 2019 10:21:22: 2000000 INFO @ Fri, 15 Feb 2019 10:21:23: 2000000 INFO @ Fri, 15 Feb 2019 10:21:23: 2000000 INFO @ Fri, 15 Feb 2019 10:21:29: 3000000 INFO @ Fri, 15 Feb 2019 10:21:30: 3000000 INFO @ Fri, 15 Feb 2019 10:21:31: 3000000 INFO @ Fri, 15 Feb 2019 10:21:36: 4000000 INFO @ Fri, 15 Feb 2019 10:21:38: 4000000 INFO @ Fri, 15 Feb 2019 10:21:39: 4000000 INFO @ Fri, 15 Feb 2019 10:21:42: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 10:21:42: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 10:21:42: #1 total tags in treatment: 4835255 INFO @ Fri, 15 Feb 2019 10:21:42: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:21:42: #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 10:21:42: #1 tags after filtering in treatment: 4835255 INFO @ Fri, 15 Feb 2019 10:21:42: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:21:42: #1 finished! INFO @ Fri, 15 Feb 2019 10:21:42: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:21:42: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:21:42: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:21:42: 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 10:21:42: Process for pairing-model is terminated! cat: SRX3933731.20_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): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3933731.20_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 `SRX3933731.20_*.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 `SRX3933731.20_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 @ Fri, 15 Feb 2019 10:21:44: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 10:21:44: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 10:21:44: #1 total tags in treatment: 4835255 INFO @ Fri, 15 Feb 2019 10:21:44: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:21:44: #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 10:21:44: #1 tags after filtering in treatment: 4835255 INFO @ Fri, 15 Feb 2019 10:21:44: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:21:44: #1 finished! INFO @ Fri, 15 Feb 2019 10:21:44: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:21:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:21:44: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:21:44: 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 10:21:44: Process for pairing-model is terminated! cat: SRX3933731.10_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): 5 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3933731.10_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 `SRX3933731.10_*.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 `SRX3933731.10_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 10:21:45: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 10:21:45: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 10:21:45: #1 total tags in treatment: 4835255 INFO @ Fri, 15 Feb 2019 10:21:45: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:21:45: #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 10:21:45: #1 tags after filtering in treatment: 4835255 INFO @ Fri, 15 Feb 2019 10:21:45: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:21:45: #1 finished! INFO @ Fri, 15 Feb 2019 10:21:45: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:21:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:21:45: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:21:45: 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 10:21:45: Process for pairing-model is terminated! cat: SRX3933731.05_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): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3933731.05_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 `SRX3933731.05_*.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 `SRX3933731.05_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。