Job ID = 9162395 sra ファイルのダウンロード中... Completed: 3042122K bytes transferred in 28 seconds (864708K 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 43600727 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2250624/SRR4429105.sra Written 43600727 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: 00:15:45 43600727 reads; of these: 43600727 (100.00%) were unpaired; of these: 3696031 (8.48%) aligned 0 times 34866695 (79.97%) aligned exactly 1 time 5038001 (11.55%) aligned >1 times 91.52% overall alignment rate Time searching: 00:15:45 Overall time: 00:15:45 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 20 files... [bam_rmdupse_core] 31439066 / 39904696 = 0.7879 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 08:08:43: # Command line: callpeak -t SRX2250624.bam -f BAM -g 12100000 -n SRX2250624.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2250624.05 # format = BAM # ChIP-seq file = ['SRX2250624.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 08:08:43: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:08:43: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:08:43: # Command line: callpeak -t SRX2250624.bam -f BAM -g 12100000 -n SRX2250624.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2250624.20 # format = BAM # ChIP-seq file = ['SRX2250624.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 08:08:43: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:08:43: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:08:43: # Command line: callpeak -t SRX2250624.bam -f BAM -g 12100000 -n SRX2250624.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2250624.10 # format = BAM # ChIP-seq file = ['SRX2250624.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 08:08:43: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:08:43: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:08:52: 1000000 INFO @ Wed, 28 Jun 2017 08:08:53: 1000000 INFO @ Wed, 28 Jun 2017 08:08:53: 1000000 INFO @ Wed, 28 Jun 2017 08:09:01: 2000000 INFO @ Wed, 28 Jun 2017 08:09:04: 2000000 INFO @ Wed, 28 Jun 2017 08:09:04: 2000000 INFO @ Wed, 28 Jun 2017 08:09:10: 3000000 INFO @ Wed, 28 Jun 2017 08:09:14: 3000000 INFO @ Wed, 28 Jun 2017 08:09:14: 3000000 INFO @ Wed, 28 Jun 2017 08:09:19: 4000000 INFO @ Wed, 28 Jun 2017 08:09:24: 4000000 INFO @ Wed, 28 Jun 2017 08:09:24: 4000000 INFO @ Wed, 28 Jun 2017 08:09:28: 5000000 INFO @ Wed, 28 Jun 2017 08:09:34: 5000000 INFO @ Wed, 28 Jun 2017 08:09:34: 5000000 INFO @ Wed, 28 Jun 2017 08:09:37: 6000000 INFO @ Wed, 28 Jun 2017 08:09:44: 6000000 INFO @ Wed, 28 Jun 2017 08:09:44: 6000000 INFO @ Wed, 28 Jun 2017 08:09:46: 7000000 INFO @ Wed, 28 Jun 2017 08:09:54: 7000000 INFO @ Wed, 28 Jun 2017 08:09:54: 7000000 INFO @ Wed, 28 Jun 2017 08:09:55: 8000000 INFO @ Wed, 28 Jun 2017 08:09:59: #1 tag size is determined as 100 bps INFO @ Wed, 28 Jun 2017 08:09:59: #1 tag size = 100 INFO @ Wed, 28 Jun 2017 08:09:59: #1 total tags in treatment: 8465630 INFO @ Wed, 28 Jun 2017 08:09:59: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:09:59: #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 08:09:59: #1 tags after filtering in treatment: 8465630 INFO @ Wed, 28 Jun 2017 08:09:59: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 08:09:59: #1 finished! INFO @ Wed, 28 Jun 2017 08:09:59: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:09:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:10:00: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:10:00: 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 08:10:00: Process for pairing-model is terminated! cat: SRX2250624.20_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 `SRX2250624.20_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 `SRX2250624.20_*.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 `SRX2250624.20_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 08:10:04: 8000000 INFO @ Wed, 28 Jun 2017 08:10:04: 8000000 INFO @ Wed, 28 Jun 2017 08:10:09: #1 tag size is determined as 100 bps INFO @ Wed, 28 Jun 2017 08:10:09: #1 tag size = 100 INFO @ Wed, 28 Jun 2017 08:10:09: #1 total tags in treatment: 8465630 INFO @ Wed, 28 Jun 2017 08:10:09: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:10:09: #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 08:10:09: #1 tag size is determined as 100 bps INFO @ Wed, 28 Jun 2017 08:10:09: #1 tag size = 100 INFO @ Wed, 28 Jun 2017 08:10:09: #1 total tags in treatment: 8465630 INFO @ Wed, 28 Jun 2017 08:10:09: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:10:09: #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 08:10:09: #1 tags after filtering in treatment: 8465630 INFO @ Wed, 28 Jun 2017 08:10:09: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 08:10:09: #1 finished! INFO @ Wed, 28 Jun 2017 08:10:09: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:10:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:10:09: #1 tags after filtering in treatment: 8465630 INFO @ Wed, 28 Jun 2017 08:10:09: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 08:10:09: #1 finished! INFO @ Wed, 28 Jun 2017 08:10:09: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:10:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:10:10: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:10:10: 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 08:10:10: Process for pairing-model is terminated! cat: SRX2250624.05_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 `SRX2250624.05_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 `SRX2250624.05_*.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 `SRX2250624.05_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 @ Wed, 28 Jun 2017 08:10:10: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:10:10: 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 08:10:10: Process for pairing-model is terminated! cat: SRX2250624.10_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 `SRX2250624.10_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 `SRX2250624.10_*.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 `SRX2250624.10_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。