Job ID = 10721718 sra ファイルのダウンロード中... Completed: 743236K bytes transferred in 19 seconds (304818K 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 23470831 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2766305/SRR5482933.sra Written 23470831 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2766305/SRR5482933.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: 00:07:33 23470831 reads; of these: 23470831 (100.00%) were unpaired; of these: 928788 (3.96%) aligned 0 times 17845030 (76.03%) aligned exactly 1 time 4697013 (20.01%) aligned >1 times 96.04% overall alignment rate Time searching: 00:07:33 Overall time: 00:07:33 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] 14074832 / 22542043 = 0.6244 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 @ Mon, 04 Jun 2018 03:52:24: # Command line: callpeak -t SRX2766305.bam -f BAM -g 12100000 -n SRX2766305.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2766305.10 # format = BAM # ChIP-seq file = ['SRX2766305.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 @ Mon, 04 Jun 2018 03:52:24: #1 read tag files... INFO @ Mon, 04 Jun 2018 03:52:24: #1 read treatment tags... INFO @ Mon, 04 Jun 2018 03:52:24: # Command line: callpeak -t SRX2766305.bam -f BAM -g 12100000 -n SRX2766305.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2766305.20 # format = BAM # ChIP-seq file = ['SRX2766305.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 @ Mon, 04 Jun 2018 03:52:24: #1 read tag files... INFO @ Mon, 04 Jun 2018 03:52:24: #1 read treatment tags... INFO @ Mon, 04 Jun 2018 03:52:24: # Command line: callpeak -t SRX2766305.bam -f BAM -g 12100000 -n SRX2766305.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2766305.05 # format = BAM # ChIP-seq file = ['SRX2766305.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 @ Mon, 04 Jun 2018 03:52:24: #1 read tag files... INFO @ Mon, 04 Jun 2018 03:52:24: #1 read treatment tags... INFO @ Mon, 04 Jun 2018 03:52:32: 1000000 INFO @ Mon, 04 Jun 2018 03:52:32: 1000000 INFO @ Mon, 04 Jun 2018 03:52:32: 1000000 INFO @ Mon, 04 Jun 2018 03:52:40: 2000000 INFO @ Mon, 04 Jun 2018 03:52:40: 2000000 INFO @ Mon, 04 Jun 2018 03:52:41: 2000000 INFO @ Mon, 04 Jun 2018 03:52:48: 3000000 INFO @ Mon, 04 Jun 2018 03:52:48: 3000000 INFO @ Mon, 04 Jun 2018 03:52:50: 3000000 INFO @ Mon, 04 Jun 2018 03:52:56: 4000000 INFO @ Mon, 04 Jun 2018 03:52:56: 4000000 INFO @ Mon, 04 Jun 2018 03:52:58: 4000000 INFO @ Mon, 04 Jun 2018 03:53:04: 5000000 INFO @ Mon, 04 Jun 2018 03:53:04: 5000000 INFO @ Mon, 04 Jun 2018 03:53:07: 5000000 INFO @ Mon, 04 Jun 2018 03:53:12: 6000000 INFO @ Mon, 04 Jun 2018 03:53:13: 6000000 INFO @ Mon, 04 Jun 2018 03:53:15: 6000000 INFO @ Mon, 04 Jun 2018 03:53:20: 7000000 INFO @ Mon, 04 Jun 2018 03:53:21: 7000000 INFO @ Mon, 04 Jun 2018 03:53:24: 7000000 INFO @ Mon, 04 Jun 2018 03:53:28: 8000000 INFO @ Mon, 04 Jun 2018 03:53:29: 8000000 INFO @ Mon, 04 Jun 2018 03:53:32: #1 tag size is determined as 50 bps INFO @ Mon, 04 Jun 2018 03:53:32: #1 tag size = 50 INFO @ Mon, 04 Jun 2018 03:53:32: #1 total tags in treatment: 8467211 INFO @ Mon, 04 Jun 2018 03:53:32: #1 user defined the maximum tags... INFO @ Mon, 04 Jun 2018 03:53:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 04 Jun 2018 03:53:32: #1 tags after filtering in treatment: 8467211 INFO @ Mon, 04 Jun 2018 03:53:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Jun 2018 03:53:32: #1 finished! INFO @ Mon, 04 Jun 2018 03:53:32: #2 Build Peak Model... INFO @ Mon, 04 Jun 2018 03:53:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Jun 2018 03:53:32: 8000000 INFO @ Mon, 04 Jun 2018 03:53:33: #2 number of paired peaks: 0 WARNING @ Mon, 04 Jun 2018 03:53:33: 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 @ Mon, 04 Jun 2018 03:53:33: Process for pairing-model is terminated! cat: SRX2766305.05_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 `SRX2766305.05_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 `SRX2766305.05_*.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 `SRX2766305.05_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 INFO @ Mon, 04 Jun 2018 03:53:33: #1 tag size is determined as 50 bps INFO @ Mon, 04 Jun 2018 03:53:33: #1 tag size = 50 INFO @ Mon, 04 Jun 2018 03:53:33: #1 total tags in treatment: 8467211 INFO @ Mon, 04 Jun 2018 03:53:33: #1 user defined the maximum tags... INFO @ Mon, 04 Jun 2018 03:53:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 04 Jun 2018 03:53:34: #1 tags after filtering in treatment: 8467211 INFO @ Mon, 04 Jun 2018 03:53:34: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Jun 2018 03:53:34: #1 finished! INFO @ Mon, 04 Jun 2018 03:53:34: #2 Build Peak Model... INFO @ Mon, 04 Jun 2018 03:53:34: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Jun 2018 03:53:34: #2 number of paired peaks: 0 WARNING @ Mon, 04 Jun 2018 03:53:34: 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 @ Mon, 04 Jun 2018 03:53:34: Process for pairing-model is terminated! cat: SRX2766305.20_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 `SRX2766305.20_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 `SRX2766305.20_*.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 `SRX2766305.20_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 @ Mon, 04 Jun 2018 03:53:36: #1 tag size is determined as 50 bps INFO @ Mon, 04 Jun 2018 03:53:36: #1 tag size = 50 INFO @ Mon, 04 Jun 2018 03:53:36: #1 total tags in treatment: 8467211 INFO @ Mon, 04 Jun 2018 03:53:36: #1 user defined the maximum tags... INFO @ Mon, 04 Jun 2018 03:53:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 04 Jun 2018 03:53:36: #1 tags after filtering in treatment: 8467211 INFO @ Mon, 04 Jun 2018 03:53:36: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Jun 2018 03:53:36: #1 finished! INFO @ Mon, 04 Jun 2018 03:53:36: #2 Build Peak Model... INFO @ Mon, 04 Jun 2018 03:53:36: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Jun 2018 03:53:37: #2 number of paired peaks: 0 WARNING @ Mon, 04 Jun 2018 03:53:37: 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 @ Mon, 04 Jun 2018 03:53:37: Process for pairing-model is terminated! cat: SRX2766305.10_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 `SRX2766305.10_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 `SRX2766305.10_*.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 `SRX2766305.10_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。