Job ID = 10924624 sra ファイルのダウンロード中... Completed: 641532K bytes transferred in 10 seconds (486394K 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 19902490 spots for /home/okishinya/chipatlas/results/dm3/SRX3989969/SRR7059010.sra Written 19902490 spots for /home/okishinya/chipatlas/results/dm3/SRX3989969/SRR7059010.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: 00:06:25 19902490 reads; of these: 19902490 (100.00%) were unpaired; of these: 1181378 (5.94%) aligned 0 times 14819728 (74.46%) aligned exactly 1 time 3901384 (19.60%) aligned >1 times 94.06% overall alignment rate Time searching: 00:06:25 Overall time: 00:06:25 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 8 files... [bam_rmdupse_core] 3540309 / 18721112 = 0.1891 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 10:38:50: # Command line: callpeak -t SRX3989969.bam -f BAM -g dm -n SRX3989969.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3989969.10 # format = BAM # ChIP-seq file = ['SRX3989969.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 10:38:50: # Command line: callpeak -t SRX3989969.bam -f BAM -g dm -n SRX3989969.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3989969.20 # format = BAM # ChIP-seq file = ['SRX3989969.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 10:38:50: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:38:50: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:38:50: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:38:50: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:38:50: # Command line: callpeak -t SRX3989969.bam -f BAM -g dm -n SRX3989969.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3989969.05 # format = BAM # ChIP-seq file = ['SRX3989969.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 10:38:50: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:38:50: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:38:56: 1000000 INFO @ Mon, 06 Aug 2018 10:38:56: 1000000 INFO @ Mon, 06 Aug 2018 10:38:56: 1000000 INFO @ Mon, 06 Aug 2018 10:39:03: 2000000 INFO @ Mon, 06 Aug 2018 10:39:03: 2000000 INFO @ Mon, 06 Aug 2018 10:39:03: 2000000 INFO @ Mon, 06 Aug 2018 10:39:09: 3000000 INFO @ Mon, 06 Aug 2018 10:39:09: 3000000 INFO @ Mon, 06 Aug 2018 10:39:10: 3000000 INFO @ Mon, 06 Aug 2018 10:39:16: 4000000 INFO @ Mon, 06 Aug 2018 10:39:16: 4000000 INFO @ Mon, 06 Aug 2018 10:39:16: 4000000 INFO @ Mon, 06 Aug 2018 10:39:22: 5000000 INFO @ Mon, 06 Aug 2018 10:39:23: 5000000 INFO @ Mon, 06 Aug 2018 10:39:23: 5000000 INFO @ Mon, 06 Aug 2018 10:39:29: 6000000 INFO @ Mon, 06 Aug 2018 10:39:29: 6000000 INFO @ Mon, 06 Aug 2018 10:39:30: 6000000 INFO @ Mon, 06 Aug 2018 10:39:35: 7000000 INFO @ Mon, 06 Aug 2018 10:39:36: 7000000 INFO @ Mon, 06 Aug 2018 10:39:37: 7000000 INFO @ Mon, 06 Aug 2018 10:39:42: 8000000 INFO @ Mon, 06 Aug 2018 10:39:43: 8000000 INFO @ Mon, 06 Aug 2018 10:39:44: 8000000 INFO @ Mon, 06 Aug 2018 10:39:48: 9000000 INFO @ Mon, 06 Aug 2018 10:39:49: 9000000 INFO @ Mon, 06 Aug 2018 10:39:50: 9000000 INFO @ Mon, 06 Aug 2018 10:39:54: 10000000 INFO @ Mon, 06 Aug 2018 10:39:56: 10000000 INFO @ Mon, 06 Aug 2018 10:39:57: 10000000 INFO @ Mon, 06 Aug 2018 10:40:01: 11000000 INFO @ Mon, 06 Aug 2018 10:40:03: 11000000 INFO @ Mon, 06 Aug 2018 10:40:04: 11000000 INFO @ Mon, 06 Aug 2018 10:40:07: 12000000 INFO @ Mon, 06 Aug 2018 10:40:09: 12000000 INFO @ Mon, 06 Aug 2018 10:40:11: 12000000 INFO @ Mon, 06 Aug 2018 10:40:14: 13000000 INFO @ Mon, 06 Aug 2018 10:40:16: 13000000 INFO @ Mon, 06 Aug 2018 10:40:18: 13000000 INFO @ Mon, 06 Aug 2018 10:40:20: 14000000 INFO @ Mon, 06 Aug 2018 10:40:23: 14000000 INFO @ Mon, 06 Aug 2018 10:40:25: 14000000 INFO @ Mon, 06 Aug 2018 10:40:27: 15000000 INFO @ Mon, 06 Aug 2018 10:40:29: #1 tag size is determined as 49 bps INFO @ Mon, 06 Aug 2018 10:40:29: #1 tag size = 49 INFO @ Mon, 06 Aug 2018 10:40:29: #1 total tags in treatment: 15180803 INFO @ Mon, 06 Aug 2018 10:40:29: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:40:29: #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 10:40:29: #1 tags after filtering in treatment: 15180803 INFO @ Mon, 06 Aug 2018 10:40:29: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:40:29: #1 finished! INFO @ Mon, 06 Aug 2018 10:40:29: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:40:29: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:40:29: 15000000 INFO @ Mon, 06 Aug 2018 10:40:30: #2 number of paired peaks: 6 WARNING @ Mon, 06 Aug 2018 10:40:30: Too few paired peaks (6) 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 10:40:30: Process for pairing-model is terminated! cat: SRX3989969.20_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 `SRX3989969.20_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 `SRX3989969.20_*.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 `SRX3989969.20_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 10:40:31: #1 tag size is determined as 49 bps INFO @ Mon, 06 Aug 2018 10:40:31: #1 tag size = 49 INFO @ Mon, 06 Aug 2018 10:40:31: #1 total tags in treatment: 15180803 INFO @ Mon, 06 Aug 2018 10:40:31: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:40:31: #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 10:40:31: #1 tags after filtering in treatment: 15180803 INFO @ Mon, 06 Aug 2018 10:40:31: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:40:31: #1 finished! INFO @ Mon, 06 Aug 2018 10:40:31: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:40:31: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:40:32: 15000000 INFO @ Mon, 06 Aug 2018 10:40:32: #2 number of paired peaks: 6 WARNING @ Mon, 06 Aug 2018 10:40:32: Too few paired peaks (6) 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 10:40:32: Process for pairing-model is terminated! cat: SRX3989969.05_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 `SRX3989969.05_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 `SRX3989969.05_*.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 `SRX3989969.05_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 @ Mon, 06 Aug 2018 10:40:33: #1 tag size is determined as 49 bps INFO @ Mon, 06 Aug 2018 10:40:33: #1 tag size = 49 INFO @ Mon, 06 Aug 2018 10:40:33: #1 total tags in treatment: 15180803 INFO @ Mon, 06 Aug 2018 10:40:33: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:40:33: #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 10:40:33: #1 tags after filtering in treatment: 15180803 INFO @ Mon, 06 Aug 2018 10:40:33: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:40:33: #1 finished! INFO @ Mon, 06 Aug 2018 10:40:33: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:40:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:40:34: #2 number of paired peaks: 6 WARNING @ Mon, 06 Aug 2018 10:40:34: Too few paired peaks (6) 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 10:40:34: Process for pairing-model is terminated! cat: SRX3989969.10_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 `SRX3989969.10_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 `SRX3989969.10_*.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 `SRX3989969.10_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。