Job ID = 9163403 sra ファイルのダウンロード中... Completed: 128681K bytes transferred in 4 seconds (236687K bits/sec), in 1 file, 2 directories. 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 4523266 spots for /home/okishinya/chipatlas/results/sacCer3/SRX717475/SRR1593170.sra Written 4523266 spots total 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: 00:00:55 4523266 reads; of these: 4523266 (100.00%) were unpaired; of these: 322927 (7.14%) aligned 0 times 3726408 (82.38%) aligned exactly 1 time 473931 (10.48%) aligned >1 times 92.86% overall alignment rate Time searching: 00:00:55 Overall time: 00:00:55 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] 1629571 / 4200339 = 0.3880 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 @ Wed, 28 Jun 2017 10:41:54: # Command line: callpeak -t SRX717475.bam -f BAM -g 12100000 -n SRX717475.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX717475.05 # format = BAM # ChIP-seq file = ['SRX717475.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 @ Wed, 28 Jun 2017 10:41:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:41:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:41:54: # Command line: callpeak -t SRX717475.bam -f BAM -g 12100000 -n SRX717475.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX717475.20 # format = BAM # ChIP-seq file = ['SRX717475.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 @ Wed, 28 Jun 2017 10:41:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:41:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:41:54: # Command line: callpeak -t SRX717475.bam -f BAM -g 12100000 -n SRX717475.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX717475.10 # format = BAM # ChIP-seq file = ['SRX717475.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 @ Wed, 28 Jun 2017 10:41:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:41:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:42:01: 1000000 INFO @ Wed, 28 Jun 2017 10:42:01: 1000000 INFO @ Wed, 28 Jun 2017 10:42:01: 1000000 INFO @ Wed, 28 Jun 2017 10:42:08: 2000000 INFO @ Wed, 28 Jun 2017 10:42:08: 2000000 INFO @ Wed, 28 Jun 2017 10:42:09: 2000000 INFO @ Wed, 28 Jun 2017 10:42:11: #1 tag size is determined as 60 bps INFO @ Wed, 28 Jun 2017 10:42:11: #1 tag size = 60 INFO @ Wed, 28 Jun 2017 10:42:11: #1 total tags in treatment: 2570768 INFO @ Wed, 28 Jun 2017 10:42:11: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:42:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 10:42:11: #1 tags after filtering in treatment: 2570768 INFO @ Wed, 28 Jun 2017 10:42:11: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:42:11: #1 finished! INFO @ Wed, 28 Jun 2017 10:42:11: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:42:11: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:42:12: #2 number of paired peaks: 17 WARNING @ Wed, 28 Jun 2017 10:42:12: Too few paired peaks (17) 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 @ Wed, 28 Jun 2017 10:42:12: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 10:42:12: #1 tag size is determined as 60 bps INFO @ Wed, 28 Jun 2017 10:42:12: #1 tag size = 60 INFO @ Wed, 28 Jun 2017 10:42:12: #1 total tags in treatment: 2570768 INFO @ Wed, 28 Jun 2017 10:42:12: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:42:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) cat: SRX717475.20_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 `SRX717475.20_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 `SRX717475.20_*.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 `SRX717475.20_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 @ Wed, 28 Jun 2017 10:42:12: #1 tags after filtering in treatment: 2570768 INFO @ Wed, 28 Jun 2017 10:42:12: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:42:12: #1 finished! INFO @ Wed, 28 Jun 2017 10:42:12: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:42:12: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:42:12: #2 number of paired peaks: 17 WARNING @ Wed, 28 Jun 2017 10:42:12: Too few paired peaks (17) 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 @ Wed, 28 Jun 2017 10:42:12: Process for pairing-model is terminated! cat: SRX717475.10_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 `SRX717475.10_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 `SRX717475.10_*.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 `SRX717475.10_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 @ Wed, 28 Jun 2017 10:42:13: #1 tag size is determined as 60 bps INFO @ Wed, 28 Jun 2017 10:42:13: #1 tag size = 60 INFO @ Wed, 28 Jun 2017 10:42:13: #1 total tags in treatment: 2570768 INFO @ Wed, 28 Jun 2017 10:42:13: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:42:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 10:42:13: #1 tags after filtering in treatment: 2570768 INFO @ Wed, 28 Jun 2017 10:42:13: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:42:13: #1 finished! INFO @ Wed, 28 Jun 2017 10:42:13: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:42:13: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:42:13: #2 number of paired peaks: 17 WARNING @ Wed, 28 Jun 2017 10:42:13: Too few paired peaks (17) 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 @ Wed, 28 Jun 2017 10:42:13: Process for pairing-model is terminated! cat: SRX717475.05_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 `SRX717475.05_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 `SRX717475.05_*.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 `SRX717475.05_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。