Job ID = 9162234 sra ファイルのダウンロード中... Completed: 451377K bytes transferred in 5 seconds (639494K 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 20190030 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1738708/SRR3471239.sra Written 20190030 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: 00:03:52 20190030 reads; of these: 20190030 (100.00%) were unpaired; of these: 459811 (2.28%) aligned 0 times 16609365 (82.27%) aligned exactly 1 time 3120854 (15.46%) aligned >1 times 97.72% overall alignment rate Time searching: 00:03:52 Overall time: 00:03:52 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 12 files... [bam_rmdupse_core] 7969261 / 19730219 = 0.4039 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 07:02:26: # Command line: callpeak -t SRX1738708.bam -f BAM -g 12100000 -n SRX1738708.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1738708.10 # format = BAM # ChIP-seq file = ['SRX1738708.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 07:02:26: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:02:26: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:02:26: # Command line: callpeak -t SRX1738708.bam -f BAM -g 12100000 -n SRX1738708.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1738708.05 # format = BAM # ChIP-seq file = ['SRX1738708.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 07:02:26: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:02:26: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:02:26: # Command line: callpeak -t SRX1738708.bam -f BAM -g 12100000 -n SRX1738708.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1738708.20 # format = BAM # ChIP-seq file = ['SRX1738708.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 07:02:26: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:02:26: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:02:33: 1000000 INFO @ Wed, 28 Jun 2017 07:02:33: 1000000 INFO @ Wed, 28 Jun 2017 07:02:34: 1000000 INFO @ Wed, 28 Jun 2017 07:02:40: 2000000 INFO @ Wed, 28 Jun 2017 07:02:41: 2000000 INFO @ Wed, 28 Jun 2017 07:02:41: 2000000 INFO @ Wed, 28 Jun 2017 07:02:47: 3000000 INFO @ Wed, 28 Jun 2017 07:02:49: 3000000 INFO @ Wed, 28 Jun 2017 07:02:49: 3000000 INFO @ Wed, 28 Jun 2017 07:02:55: 4000000 INFO @ Wed, 28 Jun 2017 07:02:57: 4000000 INFO @ Wed, 28 Jun 2017 07:02:57: 4000000 INFO @ Wed, 28 Jun 2017 07:03:02: 5000000 INFO @ Wed, 28 Jun 2017 07:03:04: 5000000 INFO @ Wed, 28 Jun 2017 07:03:05: 5000000 INFO @ Wed, 28 Jun 2017 07:03:10: 6000000 INFO @ Wed, 28 Jun 2017 07:03:12: 6000000 INFO @ Wed, 28 Jun 2017 07:03:13: 6000000 INFO @ Wed, 28 Jun 2017 07:03:17: 7000000 INFO @ Wed, 28 Jun 2017 07:03:20: 7000000 INFO @ Wed, 28 Jun 2017 07:03:21: 7000000 INFO @ Wed, 28 Jun 2017 07:03:25: 8000000 INFO @ Wed, 28 Jun 2017 07:03:27: 8000000 INFO @ Wed, 28 Jun 2017 07:03:29: 8000000 INFO @ Wed, 28 Jun 2017 07:03:32: 9000000 INFO @ Wed, 28 Jun 2017 07:03:35: 9000000 INFO @ Wed, 28 Jun 2017 07:03:37: 9000000 INFO @ Wed, 28 Jun 2017 07:03:40: 10000000 INFO @ Wed, 28 Jun 2017 07:03:43: 10000000 INFO @ Wed, 28 Jun 2017 07:03:45: 10000000 INFO @ Wed, 28 Jun 2017 07:03:48: 11000000 INFO @ Wed, 28 Jun 2017 07:03:50: 11000000 INFO @ Wed, 28 Jun 2017 07:03:53: 11000000 INFO @ Wed, 28 Jun 2017 07:03:53: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 07:03:53: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 07:03:53: #1 total tags in treatment: 11760958 INFO @ Wed, 28 Jun 2017 07:03:53: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:03:53: #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 07:03:54: #1 tags after filtering in treatment: 11760958 INFO @ Wed, 28 Jun 2017 07:03:54: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:03:54: #1 finished! INFO @ Wed, 28 Jun 2017 07:03:54: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:03:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:03:54: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:03:54: 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 07:03:54: Process for pairing-model is terminated! cat: SRX1738708.20_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 `SRX1738708.20_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 `SRX1738708.20_*.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 `SRX1738708.20_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 07:03:56: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 07:03:56: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 07:03:56: #1 total tags in treatment: 11760958 INFO @ Wed, 28 Jun 2017 07:03:56: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:03:56: #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 07:03:56: #1 tags after filtering in treatment: 11760958 INFO @ Wed, 28 Jun 2017 07:03:56: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:03:56: #1 finished! INFO @ Wed, 28 Jun 2017 07:03:56: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:03:56: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:03:57: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:03:57: 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 07:03:57: Process for pairing-model is terminated! cat: SRX1738708.10_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 `SRX1738708.10_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 `SRX1738708.10_*.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 `SRX1738708.10_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 07:03:59: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 07:03:59: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 07:03:59: #1 total tags in treatment: 11760958 INFO @ Wed, 28 Jun 2017 07:03:59: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:03:59: #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 07:03:59: #1 tags after filtering in treatment: 11760958 INFO @ Wed, 28 Jun 2017 07:03:59: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:03:59: #1 finished! INFO @ Wed, 28 Jun 2017 07:03:59: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:03:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:04:00: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:04:00: 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 07:04:00: Process for pairing-model is terminated! cat: SRX1738708.05_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 `SRX1738708.05_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 `SRX1738708.05_*.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 `SRX1738708.05_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。