Job ID = 10924628 sra ファイルのダウンロード中... Completed: 994494K bytes transferred in 15 seconds (514890K bits/sec), in 1 file. 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... Read 32170953 spots for /home/okishinya/chipatlas/results/dm3/SRX3989973/SRR7059014.sra Written 32170953 spots for /home/okishinya/chipatlas/results/dm3/SRX3989973/SRR7059014.sra rm: cannot remove `[DSE]RX*': 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 `[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: 00:25:18 32170953 reads; of these: 32170953 (100.00%) were unpaired; of these: 3449311 (10.72%) aligned 0 times 14915358 (46.36%) aligned exactly 1 time 13806284 (42.92%) aligned >1 times 89.28% overall alignment rate Time searching: 00:25:18 Overall time: 00:25:18 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 9971215 / 28721642 = 0.3472 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 @ Mon, 06 Aug 2018 11:00:51: # Command line: callpeak -t SRX3989973.bam -f BAM -g dm -n SRX3989973.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3989973.20 # format = BAM # ChIP-seq file = ['SRX3989973.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 06 Aug 2018 11:00:51: # Command line: callpeak -t SRX3989973.bam -f BAM -g dm -n SRX3989973.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3989973.10 # format = BAM # ChIP-seq file = ['SRX3989973.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 06 Aug 2018 11:00:51: # Command line: callpeak -t SRX3989973.bam -f BAM -g dm -n SRX3989973.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3989973.05 # format = BAM # ChIP-seq file = ['SRX3989973.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 06 Aug 2018 11:00:51: #1 read tag files... INFO @ Mon, 06 Aug 2018 11:00:51: #1 read tag files... INFO @ Mon, 06 Aug 2018 11:00:51: #1 read tag files... INFO @ Mon, 06 Aug 2018 11:00:51: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 11:00:51: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 11:00:51: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 11:00:58: 1000000 INFO @ Mon, 06 Aug 2018 11:00:58: 1000000 INFO @ Mon, 06 Aug 2018 11:00:58: 1000000 INFO @ Mon, 06 Aug 2018 11:01:05: 2000000 INFO @ Mon, 06 Aug 2018 11:01:05: 2000000 INFO @ Mon, 06 Aug 2018 11:01:05: 2000000 INFO @ Mon, 06 Aug 2018 11:01:12: 3000000 INFO @ Mon, 06 Aug 2018 11:01:12: 3000000 INFO @ Mon, 06 Aug 2018 11:01:12: 3000000 INFO @ Mon, 06 Aug 2018 11:01:19: 4000000 INFO @ Mon, 06 Aug 2018 11:01:19: 4000000 INFO @ Mon, 06 Aug 2018 11:01:19: 4000000 INFO @ Mon, 06 Aug 2018 11:01:26: 5000000 INFO @ Mon, 06 Aug 2018 11:01:26: 5000000 INFO @ Mon, 06 Aug 2018 11:01:26: 5000000 INFO @ Mon, 06 Aug 2018 11:01:33: 6000000 INFO @ Mon, 06 Aug 2018 11:01:33: 6000000 INFO @ Mon, 06 Aug 2018 11:01:33: 6000000 INFO @ Mon, 06 Aug 2018 11:01:40: 7000000 INFO @ Mon, 06 Aug 2018 11:01:40: 7000000 INFO @ Mon, 06 Aug 2018 11:01:40: 7000000 INFO @ Mon, 06 Aug 2018 11:01:47: 8000000 INFO @ Mon, 06 Aug 2018 11:01:47: 8000000 INFO @ Mon, 06 Aug 2018 11:01:47: 8000000 INFO @ Mon, 06 Aug 2018 11:01:54: 9000000 INFO @ Mon, 06 Aug 2018 11:01:54: 9000000 INFO @ Mon, 06 Aug 2018 11:01:54: 9000000 INFO @ Mon, 06 Aug 2018 11:02:01: 10000000 INFO @ Mon, 06 Aug 2018 11:02:01: 10000000 INFO @ Mon, 06 Aug 2018 11:02:01: 10000000 INFO @ Mon, 06 Aug 2018 11:02:08: 11000000 INFO @ Mon, 06 Aug 2018 11:02:08: 11000000 INFO @ Mon, 06 Aug 2018 11:02:08: 11000000 INFO @ Mon, 06 Aug 2018 11:02:15: 12000000 INFO @ Mon, 06 Aug 2018 11:02:16: 12000000 INFO @ Mon, 06 Aug 2018 11:02:16: 12000000 INFO @ Mon, 06 Aug 2018 11:02:22: 13000000 INFO @ Mon, 06 Aug 2018 11:02:23: 13000000 INFO @ Mon, 06 Aug 2018 11:02:23: 13000000 INFO @ Mon, 06 Aug 2018 11:02:29: 14000000 INFO @ Mon, 06 Aug 2018 11:02:30: 14000000 INFO @ Mon, 06 Aug 2018 11:02:30: 14000000 INFO @ Mon, 06 Aug 2018 11:02:36: 15000000 INFO @ Mon, 06 Aug 2018 11:02:37: 15000000 INFO @ Mon, 06 Aug 2018 11:02:37: 15000000 INFO @ Mon, 06 Aug 2018 11:02:43: 16000000 INFO @ Mon, 06 Aug 2018 11:02:44: 16000000 INFO @ Mon, 06 Aug 2018 11:02:44: 16000000 INFO @ Mon, 06 Aug 2018 11:02:50: 17000000 INFO @ Mon, 06 Aug 2018 11:02:51: 17000000 INFO @ Mon, 06 Aug 2018 11:02:51: 17000000 INFO @ Mon, 06 Aug 2018 11:02:57: 18000000 INFO @ Mon, 06 Aug 2018 11:02:58: 18000000 INFO @ Mon, 06 Aug 2018 11:02:58: 18000000 INFO @ Mon, 06 Aug 2018 11:03:03: #1 tag size is determined as 49 bps INFO @ Mon, 06 Aug 2018 11:03:03: #1 tag size = 49 INFO @ Mon, 06 Aug 2018 11:03:03: #1 total tags in treatment: 18750427 INFO @ Mon, 06 Aug 2018 11:03:03: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 11:03:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Aug 2018 11:03:03: #1 tag size is determined as 49 bps INFO @ Mon, 06 Aug 2018 11:03:03: #1 tag size = 49 INFO @ Mon, 06 Aug 2018 11:03:03: #1 total tags in treatment: 18750427 INFO @ Mon, 06 Aug 2018 11:03:03: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 11:03:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Aug 2018 11:03:03: #1 tag size is determined as 49 bps INFO @ Mon, 06 Aug 2018 11:03:03: #1 tag size = 49 INFO @ Mon, 06 Aug 2018 11:03:03: #1 total tags in treatment: 18750427 INFO @ Mon, 06 Aug 2018 11:03:03: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 11:03:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Aug 2018 11:03:03: #1 tags after filtering in treatment: 18750427 INFO @ Mon, 06 Aug 2018 11:03:03: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 11:03:03: #1 finished! INFO @ Mon, 06 Aug 2018 11:03:03: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 11:03:03: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 11:03:03: #1 tags after filtering in treatment: 18750427 INFO @ Mon, 06 Aug 2018 11:03:03: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 11:03:03: #1 finished! INFO @ Mon, 06 Aug 2018 11:03:03: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 11:03:03: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 11:03:03: #1 tags after filtering in treatment: 18750427 INFO @ Mon, 06 Aug 2018 11:03:03: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 11:03:03: #1 finished! INFO @ Mon, 06 Aug 2018 11:03:03: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 11:03:03: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 11:03:05: #2 number of paired peaks: 2 WARNING @ Mon, 06 Aug 2018 11:03:05: Too few paired peaks (2) 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 @ Mon, 06 Aug 2018 11:03:05: Process for pairing-model is terminated! cat: SRX3989973.20_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 `SRX3989973.20_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 `SRX3989973.20_*.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 `SRX3989973.20_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 @ Mon, 06 Aug 2018 11:03:05: #2 number of paired peaks: 2 WARNING @ Mon, 06 Aug 2018 11:03:05: Too few paired peaks (2) 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 @ Mon, 06 Aug 2018 11:03:05: Process for pairing-model is terminated! cat: SRX3989973.10_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 INFO @ Mon, 06 Aug 2018 11:03:05: #2 number of paired peaks: 2 WARNING @ Mon, 06 Aug 2018 11:03:05: Too few paired peaks (2) 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 @ Mon, 06 Aug 2018 11:03:05: Process for pairing-model is terminated! needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3989973.10_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 `SRX3989973.10_*.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 `SRX3989973.10_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 cat: SRX3989973.05_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 `SRX3989973.05_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 `SRX3989973.05_*.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 `SRX3989973.05_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。