Job ID = 9163285 sra ファイルのダウンロード中... Completed: 997919K bytes transferred in 13 seconds (622047K 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 32595506 spots for /home/okishinya/chipatlas/results/sacCer3/SRX707478/SRR1582481.sra Written 32595506 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: 00:05:21 32595506 reads; of these: 32595506 (100.00%) were unpaired; of these: 11723372 (35.97%) aligned 0 times 14884282 (45.66%) aligned exactly 1 time 5987852 (18.37%) aligned >1 times 64.03% overall alignment rate Time searching: 00:05:21 Overall time: 00:05:21 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] 11490060 / 20872134 = 0.5505 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 10:35:45: # Command line: callpeak -t SRX707478.bam -f BAM -g 12100000 -n SRX707478.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX707478.05 # format = BAM # ChIP-seq file = ['SRX707478.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 10:35:45: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:35:45: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:35:45: # Command line: callpeak -t SRX707478.bam -f BAM -g 12100000 -n SRX707478.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX707478.20 # format = BAM # ChIP-seq file = ['SRX707478.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 10:35:45: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:35:45: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:35:45: # Command line: callpeak -t SRX707478.bam -f BAM -g 12100000 -n SRX707478.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX707478.10 # format = BAM # ChIP-seq file = ['SRX707478.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 10:35:45: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:35:45: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:35:52: 1000000 INFO @ Wed, 28 Jun 2017 10:35:52: 1000000 INFO @ Wed, 28 Jun 2017 10:35:53: 1000000 INFO @ Wed, 28 Jun 2017 10:35:59: 2000000 INFO @ Wed, 28 Jun 2017 10:35:59: 2000000 INFO @ Wed, 28 Jun 2017 10:36:01: 2000000 INFO @ Wed, 28 Jun 2017 10:36:06: 3000000 INFO @ Wed, 28 Jun 2017 10:36:06: 3000000 INFO @ Wed, 28 Jun 2017 10:36:09: 3000000 INFO @ Wed, 28 Jun 2017 10:36:13: 4000000 INFO @ Wed, 28 Jun 2017 10:36:13: 4000000 INFO @ Wed, 28 Jun 2017 10:36:16: 4000000 INFO @ Wed, 28 Jun 2017 10:36:19: 5000000 INFO @ Wed, 28 Jun 2017 10:36:20: 5000000 INFO @ Wed, 28 Jun 2017 10:36:24: 5000000 INFO @ Wed, 28 Jun 2017 10:36:26: 6000000 INFO @ Wed, 28 Jun 2017 10:36:28: 6000000 INFO @ Wed, 28 Jun 2017 10:36:30: 6000000 INFO @ Wed, 28 Jun 2017 10:36:33: 7000000 INFO @ Wed, 28 Jun 2017 10:36:35: 7000000 INFO @ Wed, 28 Jun 2017 10:36:36: 7000000 INFO @ Wed, 28 Jun 2017 10:36:41: 8000000 INFO @ Wed, 28 Jun 2017 10:36:43: 8000000 INFO @ Wed, 28 Jun 2017 10:36:43: 8000000 INFO @ Wed, 28 Jun 2017 10:36:48: 9000000 INFO @ Wed, 28 Jun 2017 10:36:49: 9000000 INFO @ Wed, 28 Jun 2017 10:36:50: 9000000 INFO @ Wed, 28 Jun 2017 10:36:51: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 10:36:51: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 10:36:51: #1 total tags in treatment: 9382074 INFO @ Wed, 28 Jun 2017 10:36:51: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:36:51: #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 10:36:51: #1 tags after filtering in treatment: 9382074 INFO @ Wed, 28 Jun 2017 10:36:51: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:36:51: #1 finished! INFO @ Wed, 28 Jun 2017 10:36:51: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:36:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:36:51: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 10:36:51: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 10:36:51: #1 total tags in treatment: 9382074 INFO @ Wed, 28 Jun 2017 10:36:51: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:36:51: #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 10:36:51: #1 tags after filtering in treatment: 9382074 INFO @ Wed, 28 Jun 2017 10:36:51: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:36:51: #1 finished! INFO @ Wed, 28 Jun 2017 10:36:51: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:36:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:36:52: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 10:36:52: 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 10:36:52: Process for pairing-model is terminated! cat: SRX707478.20_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 `SRX707478.20_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 `SRX707478.20_*.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 `SRX707478.20_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 10:36:52: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 10:36:52: 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 10:36:52: Process for pairing-model is terminated! cat: SRX707478.10_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 `SRX707478.10_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 `SRX707478.10_*.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 `SRX707478.10_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 10:36:52: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 10:36:52: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 10:36:52: #1 total tags in treatment: 9382074 INFO @ Wed, 28 Jun 2017 10:36:52: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:36:52: #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 10:36:53: #1 tags after filtering in treatment: 9382074 INFO @ Wed, 28 Jun 2017 10:36:53: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:36:53: #1 finished! INFO @ Wed, 28 Jun 2017 10:36:53: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:36:53: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:36:53: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 10:36:53: 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 10:36:53: Process for pairing-model is terminated! cat: SRX707478.05_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 `SRX707478.05_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 `SRX707478.05_*.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 `SRX707478.05_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。