Job ID = 11240779 sra ファイルのダウンロード中... Completed: 177656K bytes transferred in 5 seconds (267614K 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 10838247 spots for /home/okishinya/chipatlas/results/dm3/SRX4669063/SRR7817588.sra Written 10838247 spots for /home/okishinya/chipatlas/results/dm3/SRX4669063/SRR7817588.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: 00:00:01 Multiseed full-index search: 00:03:11 10838247 reads; of these: 10838247 (100.00%) were unpaired; of these: 701136 (6.47%) aligned 0 times 8511528 (78.53%) aligned exactly 1 time 1625583 (15.00%) aligned >1 times 93.53% overall alignment rate Time searching: 00:03:12 Overall time: 00:03:12 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] 1157533 / 10137111 = 0.1142 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 @ Sun, 07 Oct 2018 20:40:26: # Command line: callpeak -t SRX4669063.bam -f BAM -g dm -n SRX4669063.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4669063.20 # format = BAM # ChIP-seq file = ['SRX4669063.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 @ Sun, 07 Oct 2018 20:40:26: #1 read tag files... INFO @ Sun, 07 Oct 2018 20:40:26: #1 read treatment tags... INFO @ Sun, 07 Oct 2018 20:40:26: # Command line: callpeak -t SRX4669063.bam -f BAM -g dm -n SRX4669063.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4669063.05 # format = BAM # ChIP-seq file = ['SRX4669063.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 @ Sun, 07 Oct 2018 20:40:26: #1 read tag files... INFO @ Sun, 07 Oct 2018 20:40:26: #1 read treatment tags... INFO @ Sun, 07 Oct 2018 20:40:26: # Command line: callpeak -t SRX4669063.bam -f BAM -g dm -n SRX4669063.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4669063.10 # format = BAM # ChIP-seq file = ['SRX4669063.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 @ Sun, 07 Oct 2018 20:40:26: #1 read tag files... INFO @ Sun, 07 Oct 2018 20:40:26: #1 read treatment tags... INFO @ Sun, 07 Oct 2018 20:40:33: 1000000 INFO @ Sun, 07 Oct 2018 20:40:33: 1000000 INFO @ Sun, 07 Oct 2018 20:40:33: 1000000 INFO @ Sun, 07 Oct 2018 20:40:39: 2000000 INFO @ Sun, 07 Oct 2018 20:40:40: 2000000 INFO @ Sun, 07 Oct 2018 20:40:40: 2000000 INFO @ Sun, 07 Oct 2018 20:40:46: 3000000 INFO @ Sun, 07 Oct 2018 20:40:47: 3000000 INFO @ Sun, 07 Oct 2018 20:40:47: 3000000 INFO @ Sun, 07 Oct 2018 20:40:53: 4000000 INFO @ Sun, 07 Oct 2018 20:40:55: 4000000 INFO @ Sun, 07 Oct 2018 20:40:55: 4000000 INFO @ Sun, 07 Oct 2018 20:40:59: 5000000 INFO @ Sun, 07 Oct 2018 20:41:02: 5000000 INFO @ Sun, 07 Oct 2018 20:41:02: 5000000 INFO @ Sun, 07 Oct 2018 20:41:06: 6000000 INFO @ Sun, 07 Oct 2018 20:41:09: 6000000 INFO @ Sun, 07 Oct 2018 20:41:09: 6000000 INFO @ Sun, 07 Oct 2018 20:41:13: 7000000 INFO @ Sun, 07 Oct 2018 20:41:17: 7000000 INFO @ Sun, 07 Oct 2018 20:41:17: 7000000 INFO @ Sun, 07 Oct 2018 20:41:20: 8000000 INFO @ Sun, 07 Oct 2018 20:41:24: 8000000 INFO @ Sun, 07 Oct 2018 20:41:24: 8000000 INFO @ Sun, 07 Oct 2018 20:41:27: #1 tag size is determined as 50 bps INFO @ Sun, 07 Oct 2018 20:41:27: #1 tag size = 50 INFO @ Sun, 07 Oct 2018 20:41:27: #1 total tags in treatment: 8979578 INFO @ Sun, 07 Oct 2018 20:41:27: #1 user defined the maximum tags... INFO @ Sun, 07 Oct 2018 20:41:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 07 Oct 2018 20:41:27: #1 tags after filtering in treatment: 8979578 INFO @ Sun, 07 Oct 2018 20:41:27: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 07 Oct 2018 20:41:27: #1 finished! INFO @ Sun, 07 Oct 2018 20:41:27: #2 Build Peak Model... INFO @ Sun, 07 Oct 2018 20:41:27: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 07 Oct 2018 20:41:28: #2 number of paired peaks: 79 WARNING @ Sun, 07 Oct 2018 20:41:28: Too few paired peaks (79) 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 @ Sun, 07 Oct 2018 20:41:28: Process for pairing-model is terminated! cat: SRX4669063.10_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 `SRX4669063.10_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 `SRX4669063.10_*.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 `SRX4669063.10_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 @ Sun, 07 Oct 2018 20:41:31: #1 tag size is determined as 50 bps INFO @ Sun, 07 Oct 2018 20:41:31: #1 tag size = 50 INFO @ Sun, 07 Oct 2018 20:41:31: #1 total tags in treatment: 8979578 INFO @ Sun, 07 Oct 2018 20:41:31: #1 user defined the maximum tags... INFO @ Sun, 07 Oct 2018 20:41:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 07 Oct 2018 20:41:31: #1 tag size is determined as 50 bps INFO @ Sun, 07 Oct 2018 20:41:31: #1 tag size = 50 INFO @ Sun, 07 Oct 2018 20:41:31: #1 total tags in treatment: 8979578 INFO @ Sun, 07 Oct 2018 20:41:31: #1 user defined the maximum tags... INFO @ Sun, 07 Oct 2018 20:41:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 07 Oct 2018 20:41:32: #1 tags after filtering in treatment: 8979578 INFO @ Sun, 07 Oct 2018 20:41:32: #1 tags after filtering in treatment: 8979578 INFO @ Sun, 07 Oct 2018 20:41:32: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 07 Oct 2018 20:41:32: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 07 Oct 2018 20:41:32: #1 finished! INFO @ Sun, 07 Oct 2018 20:41:32: #1 finished! INFO @ Sun, 07 Oct 2018 20:41:32: #2 Build Peak Model... INFO @ Sun, 07 Oct 2018 20:41:32: #2 Build Peak Model... INFO @ Sun, 07 Oct 2018 20:41:32: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 07 Oct 2018 20:41:32: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 07 Oct 2018 20:41:32: #2 number of paired peaks: 79 WARNING @ Sun, 07 Oct 2018 20:41:32: Too few paired peaks (79) 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 @ Sun, 07 Oct 2018 20:41:32: Process for pairing-model is terminated! cat: SRX4669063.20_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 `SRX4669063.20_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 `SRX4669063.20_*.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 `SRX4669063.20_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 @ Sun, 07 Oct 2018 20:41:32: #2 number of paired peaks: 79 WARNING @ Sun, 07 Oct 2018 20:41:32: Too few paired peaks (79) 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 @ Sun, 07 Oct 2018 20:41:32: Process for pairing-model is terminated! cat: SRX4669063.05_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 `SRX4669063.05_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 `SRX4669063.05_*.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 `SRX4669063.05_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。