Job ID = 9162213 sra ファイルのダウンロード中... Completed: 884397K bytes transferred in 8 seconds (873099K 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 28753450 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1738685/SRR3471216.sra Written 28753450 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: 00:06:24 28753450 reads; of these: 28753450 (100.00%) were unpaired; of these: 2049614 (7.13%) aligned 0 times 23362925 (81.25%) aligned exactly 1 time 3340911 (11.62%) aligned >1 times 92.87% overall alignment rate Time searching: 00:06:24 Overall time: 00:06:24 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] 14255209 / 26703836 = 0.5338 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 07:04:35: # Command line: callpeak -t SRX1738685.bam -f BAM -g 12100000 -n SRX1738685.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1738685.05 # format = BAM # ChIP-seq file = ['SRX1738685.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 07:04:35: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:04:35: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:04:35: # Command line: callpeak -t SRX1738685.bam -f BAM -g 12100000 -n SRX1738685.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1738685.10 # format = BAM # ChIP-seq file = ['SRX1738685.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 07:04:35: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:04:35: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:04:35: # Command line: callpeak -t SRX1738685.bam -f BAM -g 12100000 -n SRX1738685.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1738685.20 # format = BAM # ChIP-seq file = ['SRX1738685.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 07:04:35: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:04:35: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:04:41: 1000000 INFO @ Wed, 28 Jun 2017 07:04:41: 1000000 INFO @ Wed, 28 Jun 2017 07:04:42: 1000000 INFO @ Wed, 28 Jun 2017 07:04:47: 2000000 INFO @ Wed, 28 Jun 2017 07:04:48: 2000000 INFO @ Wed, 28 Jun 2017 07:04:48: 2000000 INFO @ Wed, 28 Jun 2017 07:04:54: 3000000 INFO @ Wed, 28 Jun 2017 07:04:54: 3000000 INFO @ Wed, 28 Jun 2017 07:04:55: 3000000 INFO @ Wed, 28 Jun 2017 07:05:00: 4000000 INFO @ Wed, 28 Jun 2017 07:05:00: 4000000 INFO @ Wed, 28 Jun 2017 07:05:01: 4000000 INFO @ Wed, 28 Jun 2017 07:05:06: 5000000 INFO @ Wed, 28 Jun 2017 07:05:06: 5000000 INFO @ Wed, 28 Jun 2017 07:05:08: 5000000 INFO @ Wed, 28 Jun 2017 07:05:12: 6000000 INFO @ Wed, 28 Jun 2017 07:05:13: 6000000 INFO @ Wed, 28 Jun 2017 07:05:15: 6000000 INFO @ Wed, 28 Jun 2017 07:05:19: 7000000 INFO @ Wed, 28 Jun 2017 07:05:19: 7000000 INFO @ Wed, 28 Jun 2017 07:05:22: 7000000 INFO @ Wed, 28 Jun 2017 07:05:25: 8000000 INFO @ Wed, 28 Jun 2017 07:05:26: 8000000 INFO @ Wed, 28 Jun 2017 07:05:28: 8000000 INFO @ Wed, 28 Jun 2017 07:05:31: 9000000 INFO @ Wed, 28 Jun 2017 07:05:32: 9000000 INFO @ Wed, 28 Jun 2017 07:05:35: 9000000 INFO @ Wed, 28 Jun 2017 07:05:38: 10000000 INFO @ Wed, 28 Jun 2017 07:05:38: 10000000 INFO @ Wed, 28 Jun 2017 07:05:42: 10000000 INFO @ Wed, 28 Jun 2017 07:05:43: 11000000 INFO @ Wed, 28 Jun 2017 07:05:45: 11000000 INFO @ Wed, 28 Jun 2017 07:05:48: 11000000 INFO @ Wed, 28 Jun 2017 07:05:49: 12000000 INFO @ Wed, 28 Jun 2017 07:05:51: 12000000 INFO @ Wed, 28 Jun 2017 07:05:52: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 07:05:52: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 07:05:52: #1 total tags in treatment: 12448627 INFO @ Wed, 28 Jun 2017 07:05:52: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:05:52: #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 07:05:52: #1 tags after filtering in treatment: 12448627 INFO @ Wed, 28 Jun 2017 07:05:52: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:05:52: #1 finished! INFO @ Wed, 28 Jun 2017 07:05:52: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:05:52: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:05:53: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:05:53: 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 07:05:53: Process for pairing-model is terminated! cat: SRX1738685.20_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 `SRX1738685.20_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 `SRX1738685.20_*.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 `SRX1738685.20_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 07:05:54: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 07:05:54: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 07:05:54: #1 total tags in treatment: 12448627 INFO @ Wed, 28 Jun 2017 07:05:54: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:05:54: #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 07:05:54: #1 tags after filtering in treatment: 12448627 INFO @ Wed, 28 Jun 2017 07:05:54: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:05:54: #1 finished! INFO @ Wed, 28 Jun 2017 07:05:54: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:05:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:05:55: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:05:55: 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 07:05:55: Process for pairing-model is terminated! cat: SRX1738685.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Wed, 28 Jun 2017 07:05:55: 12000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1738685.10_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 `SRX1738685.10_*.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 `SRX1738685.10_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 07:05:58: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 07:05:58: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 07:05:58: #1 total tags in treatment: 12448627 INFO @ Wed, 28 Jun 2017 07:05:58: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:05:58: #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 07:05:58: #1 tags after filtering in treatment: 12448627 INFO @ Wed, 28 Jun 2017 07:05:58: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:05:58: #1 finished! INFO @ Wed, 28 Jun 2017 07:05:58: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:05:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:05:59: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:05:59: 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 07:05:59: Process for pairing-model is terminated! cat: SRX1738685.05_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 `SRX1738685.05_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 `SRX1738685.05_*.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 `SRX1738685.05_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。