Job ID = 11240807 sra ファイルのダウンロード中... Completed: 440846K bytes transferred in 7 seconds (482402K 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 13907077 spots for /home/okishinya/chipatlas/results/dm3/SRX4798854/SRR7965215.sra Written 13907077 spots for /home/okishinya/chipatlas/results/dm3/SRX4798854/SRR7965215.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: 00:03:44 13907077 reads; of these: 13907077 (100.00%) were unpaired; of these: 629142 (4.52%) aligned 0 times 11925937 (85.75%) aligned exactly 1 time 1351998 (9.72%) aligned >1 times 95.48% overall alignment rate Time searching: 00:03:44 Overall time: 00:03:44 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] 958324 / 13277935 = 0.0722 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 20:51:20: # Command line: callpeak -t SRX4798854.bam -f BAM -g dm -n SRX4798854.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4798854.20 # format = BAM # ChIP-seq file = ['SRX4798854.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 20:51:20: #1 read tag files... INFO @ Sun, 07 Oct 2018 20:51:20: #1 read treatment tags... INFO @ Sun, 07 Oct 2018 20:51:20: # Command line: callpeak -t SRX4798854.bam -f BAM -g dm -n SRX4798854.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4798854.05 # format = BAM # ChIP-seq file = ['SRX4798854.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 20:51:20: #1 read tag files... INFO @ Sun, 07 Oct 2018 20:51:20: #1 read treatment tags... INFO @ Sun, 07 Oct 2018 20:51:20: # Command line: callpeak -t SRX4798854.bam -f BAM -g dm -n SRX4798854.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4798854.10 # format = BAM # ChIP-seq file = ['SRX4798854.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 20:51:20: #1 read tag files... INFO @ Sun, 07 Oct 2018 20:51:20: #1 read treatment tags... INFO @ Sun, 07 Oct 2018 20:51:26: 1000000 INFO @ Sun, 07 Oct 2018 20:51:26: 1000000 INFO @ Sun, 07 Oct 2018 20:51:26: 1000000 INFO @ Sun, 07 Oct 2018 20:51:32: 2000000 INFO @ Sun, 07 Oct 2018 20:51:32: 2000000 INFO @ Sun, 07 Oct 2018 20:51:32: 2000000 INFO @ Sun, 07 Oct 2018 20:51:38: 3000000 INFO @ Sun, 07 Oct 2018 20:51:38: 3000000 INFO @ Sun, 07 Oct 2018 20:51:39: 3000000 INFO @ Sun, 07 Oct 2018 20:51:44: 4000000 INFO @ Sun, 07 Oct 2018 20:51:45: 4000000 INFO @ Sun, 07 Oct 2018 20:51:45: 4000000 INFO @ Sun, 07 Oct 2018 20:51:50: 5000000 INFO @ Sun, 07 Oct 2018 20:51:51: 5000000 INFO @ Sun, 07 Oct 2018 20:51:51: 5000000 INFO @ Sun, 07 Oct 2018 20:51:56: 6000000 INFO @ Sun, 07 Oct 2018 20:51:57: 6000000 INFO @ Sun, 07 Oct 2018 20:51:58: 6000000 INFO @ Sun, 07 Oct 2018 20:52:02: 7000000 INFO @ Sun, 07 Oct 2018 20:52:03: 7000000 INFO @ Sun, 07 Oct 2018 20:52:04: 7000000 INFO @ Sun, 07 Oct 2018 20:52:07: 8000000 INFO @ Sun, 07 Oct 2018 20:52:09: 8000000 INFO @ Sun, 07 Oct 2018 20:52:10: 8000000 INFO @ Sun, 07 Oct 2018 20:52:13: 9000000 INFO @ Sun, 07 Oct 2018 20:52:15: 9000000 INFO @ Sun, 07 Oct 2018 20:52:16: 9000000 INFO @ Sun, 07 Oct 2018 20:52:19: 10000000 INFO @ Sun, 07 Oct 2018 20:52:21: 10000000 INFO @ Sun, 07 Oct 2018 20:52:22: 10000000 INFO @ Sun, 07 Oct 2018 20:52:25: 11000000 INFO @ Sun, 07 Oct 2018 20:52:28: 11000000 INFO @ Sun, 07 Oct 2018 20:52:29: 11000000 INFO @ Sun, 07 Oct 2018 20:52:31: 12000000 INFO @ Sun, 07 Oct 2018 20:52:33: #1 tag size is determined as 51 bps INFO @ Sun, 07 Oct 2018 20:52:33: #1 tag size = 51 INFO @ Sun, 07 Oct 2018 20:52:33: #1 total tags in treatment: 12319611 INFO @ Sun, 07 Oct 2018 20:52:33: #1 user defined the maximum tags... INFO @ Sun, 07 Oct 2018 20:52:33: #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 20:52:34: #1 tags after filtering in treatment: 12319611 INFO @ Sun, 07 Oct 2018 20:52:34: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 07 Oct 2018 20:52:34: #1 finished! INFO @ Sun, 07 Oct 2018 20:52:34: #2 Build Peak Model... INFO @ Sun, 07 Oct 2018 20:52:34: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 07 Oct 2018 20:52:34: 12000000 INFO @ Sun, 07 Oct 2018 20:52:34: #2 number of paired peaks: 39 WARNING @ Sun, 07 Oct 2018 20:52:34: Too few paired peaks (39) 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 20:52:34: Process for pairing-model is terminated! cat: SRX4798854.05_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 `SRX4798854.05_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 `SRX4798854.05_*.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 `SRX4798854.05_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 @ Sun, 07 Oct 2018 20:52:35: 12000000 INFO @ Sun, 07 Oct 2018 20:52:36: #1 tag size is determined as 51 bps INFO @ Sun, 07 Oct 2018 20:52:36: #1 tag size = 51 INFO @ Sun, 07 Oct 2018 20:52:36: #1 total tags in treatment: 12319611 INFO @ Sun, 07 Oct 2018 20:52:36: #1 user defined the maximum tags... INFO @ Sun, 07 Oct 2018 20:52:36: #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 20:52:36: #1 tags after filtering in treatment: 12319611 INFO @ Sun, 07 Oct 2018 20:52:36: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 07 Oct 2018 20:52:36: #1 finished! INFO @ Sun, 07 Oct 2018 20:52:36: #2 Build Peak Model... INFO @ Sun, 07 Oct 2018 20:52:36: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 07 Oct 2018 20:52:37: #2 number of paired peaks: 39 WARNING @ Sun, 07 Oct 2018 20:52:37: Too few paired peaks (39) 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 20:52:37: Process for pairing-model is terminated! cat: SRX4798854.10_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 `SRX4798854.10_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 `SRX4798854.10_*.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 `SRX4798854.10_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 20:52:37: #1 tag size is determined as 51 bps INFO @ Sun, 07 Oct 2018 20:52:37: #1 tag size = 51 INFO @ Sun, 07 Oct 2018 20:52:37: #1 total tags in treatment: 12319611 INFO @ Sun, 07 Oct 2018 20:52:37: #1 user defined the maximum tags... INFO @ Sun, 07 Oct 2018 20:52:37: #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 20:52:37: #1 tags after filtering in treatment: 12319611 INFO @ Sun, 07 Oct 2018 20:52:37: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 07 Oct 2018 20:52:37: #1 finished! INFO @ Sun, 07 Oct 2018 20:52:37: #2 Build Peak Model... INFO @ Sun, 07 Oct 2018 20:52:37: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 07 Oct 2018 20:52:38: #2 number of paired peaks: 39 WARNING @ Sun, 07 Oct 2018 20:52:38: Too few paired peaks (39) 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 20:52:38: Process for pairing-model is terminated! cat: SRX4798854.20_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 `SRX4798854.20_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 `SRX4798854.20_*.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 `SRX4798854.20_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。