Job ID = 9162077 sra ファイルのダウンロード中... Completed: 414389K bytes transferred in 6 seconds (519375K 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 16492543 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1585401/SRR3170289.sra Written 16492543 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: 00:02:52 16492543 reads; of these: 16492543 (100.00%) were unpaired; of these: 3649269 (22.13%) aligned 0 times 11120171 (67.43%) aligned exactly 1 time 1723103 (10.45%) aligned >1 times 77.87% overall alignment rate Time searching: 00:02:52 Overall time: 00:02:52 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] 4916697 / 12843274 = 0.3828 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 05:51:28: # Command line: callpeak -t SRX1585401.bam -f BAM -g 12100000 -n SRX1585401.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1585401.05 # format = BAM # ChIP-seq file = ['SRX1585401.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 05:51:28: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:51:28: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:51:28: # Command line: callpeak -t SRX1585401.bam -f BAM -g 12100000 -n SRX1585401.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1585401.10 # format = BAM # ChIP-seq file = ['SRX1585401.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 05:51:28: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:51:28: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:51:28: # Command line: callpeak -t SRX1585401.bam -f BAM -g 12100000 -n SRX1585401.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1585401.20 # format = BAM # ChIP-seq file = ['SRX1585401.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 05:51:28: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:51:28: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:51:34: 1000000 INFO @ Wed, 28 Jun 2017 05:51:35: 1000000 INFO @ Wed, 28 Jun 2017 05:51:35: 1000000 INFO @ Wed, 28 Jun 2017 05:51:41: 2000000 INFO @ Wed, 28 Jun 2017 05:51:41: 2000000 INFO @ Wed, 28 Jun 2017 05:51:42: 2000000 INFO @ Wed, 28 Jun 2017 05:51:47: 3000000 INFO @ Wed, 28 Jun 2017 05:51:47: 3000000 INFO @ Wed, 28 Jun 2017 05:51:48: 3000000 INFO @ Wed, 28 Jun 2017 05:51:53: 4000000 INFO @ Wed, 28 Jun 2017 05:51:54: 4000000 INFO @ Wed, 28 Jun 2017 05:51:55: 4000000 INFO @ Wed, 28 Jun 2017 05:52:00: 5000000 INFO @ Wed, 28 Jun 2017 05:52:00: 5000000 INFO @ Wed, 28 Jun 2017 05:52:02: 5000000 INFO @ Wed, 28 Jun 2017 05:52:06: 6000000 INFO @ Wed, 28 Jun 2017 05:52:06: 6000000 INFO @ Wed, 28 Jun 2017 05:52:09: 6000000 INFO @ Wed, 28 Jun 2017 05:52:12: 7000000 INFO @ Wed, 28 Jun 2017 05:52:13: 7000000 INFO @ Wed, 28 Jun 2017 05:52:16: 7000000 INFO @ Wed, 28 Jun 2017 05:52:19: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:52:19: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:52:19: #1 total tags in treatment: 7926577 INFO @ Wed, 28 Jun 2017 05:52:19: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:52:19: #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 05:52:19: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:52:19: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:52:19: #1 total tags in treatment: 7926577 INFO @ Wed, 28 Jun 2017 05:52:19: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:52:19: #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 05:52:19: #1 tags after filtering in treatment: 7926577 INFO @ Wed, 28 Jun 2017 05:52:19: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:52:19: #1 finished! INFO @ Wed, 28 Jun 2017 05:52:19: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:52:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:52:19: #1 tags after filtering in treatment: 7926577 INFO @ Wed, 28 Jun 2017 05:52:19: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:52:19: #1 finished! INFO @ Wed, 28 Jun 2017 05:52:19: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:52:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:52:19: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:52:19: 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 @ Wed, 28 Jun 2017 05:52:19: Process for pairing-model is terminated! cat: SRX1585401.10_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 `SRX1585401.10_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 `SRX1585401.10_*.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 `SRX1585401.10_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 05:52:19: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:52:19: 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 @ Wed, 28 Jun 2017 05:52:19: Process for pairing-model is terminated! cat: SRX1585401.20_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 `SRX1585401.20_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 `SRX1585401.20_*.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 `SRX1585401.20_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 05:52:22: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:52:22: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:52:22: #1 total tags in treatment: 7926577 INFO @ Wed, 28 Jun 2017 05:52:22: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:52:22: #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 05:52:22: #1 tags after filtering in treatment: 7926577 INFO @ Wed, 28 Jun 2017 05:52:22: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:52:22: #1 finished! INFO @ Wed, 28 Jun 2017 05:52:22: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:52:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:52:23: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:52:23: 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 @ Wed, 28 Jun 2017 05:52:23: Process for pairing-model is terminated! cat: SRX1585401.05_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 `SRX1585401.05_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 `SRX1585401.05_*.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 `SRX1585401.05_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。