Job ID = 11244879 sra ファイルのダウンロード中... Completed: 590709K bytes transferred in 8 seconds (566415K 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 31797998 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4003430/SRR7072982.sra Written 31797998 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4003430/SRR7072982.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: 00:05:52 31797998 reads; of these: 31797998 (100.00%) were unpaired; of these: 989548 (3.11%) aligned 0 times 24001378 (75.48%) aligned exactly 1 time 6807072 (21.41%) aligned >1 times 96.89% overall alignment rate Time searching: 00:05:53 Overall time: 00:05:53 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 16 files... [bam_rmdupse_core] 17419356 / 30808450 = 0.5654 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 @ Tue, 09 Oct 2018 22:40:55: # Command line: callpeak -t SRX4003430.bam -f BAM -g 12100000 -n SRX4003430.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4003430.20 # format = BAM # ChIP-seq file = ['SRX4003430.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 @ Tue, 09 Oct 2018 22:40:55: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:40:55: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:40:55: # Command line: callpeak -t SRX4003430.bam -f BAM -g 12100000 -n SRX4003430.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4003430.05 # format = BAM # ChIP-seq file = ['SRX4003430.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 @ Tue, 09 Oct 2018 22:40:55: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:40:55: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:40:55: # Command line: callpeak -t SRX4003430.bam -f BAM -g 12100000 -n SRX4003430.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4003430.10 # format = BAM # ChIP-seq file = ['SRX4003430.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 @ Tue, 09 Oct 2018 22:40:55: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:40:55: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:41:02: 1000000 INFO @ Tue, 09 Oct 2018 22:41:03: 1000000 INFO @ Tue, 09 Oct 2018 22:41:03: 1000000 INFO @ Tue, 09 Oct 2018 22:41:09: 2000000 INFO @ Tue, 09 Oct 2018 22:41:10: 2000000 INFO @ Tue, 09 Oct 2018 22:41:10: 2000000 INFO @ Tue, 09 Oct 2018 22:41:16: 3000000 INFO @ Tue, 09 Oct 2018 22:41:18: 3000000 INFO @ Tue, 09 Oct 2018 22:41:18: 3000000 INFO @ Tue, 09 Oct 2018 22:41:23: 4000000 INFO @ Tue, 09 Oct 2018 22:41:26: 4000000 INFO @ Tue, 09 Oct 2018 22:41:26: 4000000 INFO @ Tue, 09 Oct 2018 22:41:30: 5000000 INFO @ Tue, 09 Oct 2018 22:41:33: 5000000 INFO @ Tue, 09 Oct 2018 22:41:33: 5000000 INFO @ Tue, 09 Oct 2018 22:41:37: 6000000 INFO @ Tue, 09 Oct 2018 22:41:41: 6000000 INFO @ Tue, 09 Oct 2018 22:41:41: 6000000 INFO @ Tue, 09 Oct 2018 22:41:44: 7000000 INFO @ Tue, 09 Oct 2018 22:41:48: 7000000 INFO @ Tue, 09 Oct 2018 22:41:48: 7000000 INFO @ Tue, 09 Oct 2018 22:41:51: 8000000 INFO @ Tue, 09 Oct 2018 22:41:55: 8000000 INFO @ Tue, 09 Oct 2018 22:41:55: 8000000 INFO @ Tue, 09 Oct 2018 22:41:58: 9000000 INFO @ Tue, 09 Oct 2018 22:42:03: 9000000 INFO @ Tue, 09 Oct 2018 22:42:03: 9000000 INFO @ Tue, 09 Oct 2018 22:42:05: 10000000 INFO @ Tue, 09 Oct 2018 22:42:10: 10000000 INFO @ Tue, 09 Oct 2018 22:42:10: 10000000 INFO @ Tue, 09 Oct 2018 22:42:12: 11000000 INFO @ Tue, 09 Oct 2018 22:42:18: 11000000 INFO @ Tue, 09 Oct 2018 22:42:18: 11000000 INFO @ Tue, 09 Oct 2018 22:42:19: 12000000 INFO @ Tue, 09 Oct 2018 22:42:25: 12000000 INFO @ Tue, 09 Oct 2018 22:42:25: 12000000 INFO @ Tue, 09 Oct 2018 22:42:26: 13000000 INFO @ Tue, 09 Oct 2018 22:42:29: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 22:42:29: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 22:42:29: #1 total tags in treatment: 13389094 INFO @ Tue, 09 Oct 2018 22:42:29: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:42:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 22:42:29: #1 tags after filtering in treatment: 13389094 INFO @ Tue, 09 Oct 2018 22:42:29: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:42:29: #1 finished! INFO @ Tue, 09 Oct 2018 22:42:29: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:42:29: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:42:30: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:42:30: 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 @ Tue, 09 Oct 2018 22:42:30: Process for pairing-model is terminated! cat: SRX4003430.05_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): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4003430.05_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 `SRX4003430.05_*.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 `SRX4003430.05_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 @ Tue, 09 Oct 2018 22:42:32: 13000000 INFO @ Tue, 09 Oct 2018 22:42:32: 13000000 INFO @ Tue, 09 Oct 2018 22:42:35: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 22:42:35: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 22:42:35: #1 total tags in treatment: 13389094 INFO @ Tue, 09 Oct 2018 22:42:35: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:42:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 22:42:35: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 22:42:35: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 22:42:35: #1 total tags in treatment: 13389094 INFO @ Tue, 09 Oct 2018 22:42:35: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:42:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 22:42:35: #1 tags after filtering in treatment: 13389094 INFO @ Tue, 09 Oct 2018 22:42:35: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:42:35: #1 finished! INFO @ Tue, 09 Oct 2018 22:42:35: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:42:35: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:42:35: #1 tags after filtering in treatment: 13389094 INFO @ Tue, 09 Oct 2018 22:42:35: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:42:35: #1 finished! INFO @ Tue, 09 Oct 2018 22:42:35: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:42:35: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:42:36: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:42:36: 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 @ Tue, 09 Oct 2018 22:42:36: Process for pairing-model is terminated! INFO @ Tue, 09 Oct 2018 22:42:36: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:42:36: 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 @ Tue, 09 Oct 2018 22:42:36: Process for pairing-model is terminated! cat: SRX4003430.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX4003430.20_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 `SRX4003430.10_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 `SRX4003430.10_*.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 `SRX4003430.10_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4003430.20_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 `SRX4003430.20_*.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 `SRX4003430.20_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。