Job ID = 11244878 sra ファイルのダウンロード中... Completed: 907000K bytes transferred in 10 seconds (685104K 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 50044495 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4003429/SRR7072981.sra Written 50044495 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4003429/SRR7072981.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: 00:10:07 50044495 reads; of these: 50044495 (100.00%) were unpaired; of these: 1401828 (2.80%) aligned 0 times 34753612 (69.45%) aligned exactly 1 time 13889055 (27.75%) aligned >1 times 97.20% overall alignment rate Time searching: 00:10:07 Overall time: 00:10:07 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 20 files... [bam_rmdupse_core] 31413928 / 48642667 = 0.6458 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 22:48:34: # Command line: callpeak -t SRX4003429.bam -f BAM -g 12100000 -n SRX4003429.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4003429.05 # format = BAM # ChIP-seq file = ['SRX4003429.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 22:48:34: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:48:34: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:48:34: # Command line: callpeak -t SRX4003429.bam -f BAM -g 12100000 -n SRX4003429.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4003429.10 # format = BAM # ChIP-seq file = ['SRX4003429.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 22:48:34: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:48:34: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:48:34: # Command line: callpeak -t SRX4003429.bam -f BAM -g 12100000 -n SRX4003429.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4003429.20 # format = BAM # ChIP-seq file = ['SRX4003429.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 22:48:34: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:48:34: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:48:41: 1000000 INFO @ Tue, 09 Oct 2018 22:48:42: 1000000 INFO @ Tue, 09 Oct 2018 22:48:42: 1000000 INFO @ Tue, 09 Oct 2018 22:48:49: 2000000 INFO @ Tue, 09 Oct 2018 22:48:51: 2000000 INFO @ Tue, 09 Oct 2018 22:48:51: 2000000 INFO @ Tue, 09 Oct 2018 22:48:57: 3000000 INFO @ Tue, 09 Oct 2018 22:49:00: 3000000 INFO @ Tue, 09 Oct 2018 22:49:00: 3000000 INFO @ Tue, 09 Oct 2018 22:49:05: 4000000 INFO @ Tue, 09 Oct 2018 22:49:09: 4000000 INFO @ Tue, 09 Oct 2018 22:49:09: 4000000 INFO @ Tue, 09 Oct 2018 22:49:13: 5000000 INFO @ Tue, 09 Oct 2018 22:49:18: 5000000 INFO @ Tue, 09 Oct 2018 22:49:18: 5000000 INFO @ Tue, 09 Oct 2018 22:49:20: 6000000 INFO @ Tue, 09 Oct 2018 22:49:27: 6000000 INFO @ Tue, 09 Oct 2018 22:49:27: 6000000 INFO @ Tue, 09 Oct 2018 22:49:28: 7000000 INFO @ Tue, 09 Oct 2018 22:49:36: 8000000 INFO @ Tue, 09 Oct 2018 22:49:36: 7000000 INFO @ Tue, 09 Oct 2018 22:49:36: 7000000 INFO @ Tue, 09 Oct 2018 22:49:44: 9000000 INFO @ Tue, 09 Oct 2018 22:49:45: 8000000 INFO @ Tue, 09 Oct 2018 22:49:45: 8000000 INFO @ Tue, 09 Oct 2018 22:49:52: 10000000 INFO @ Tue, 09 Oct 2018 22:49:54: 9000000 INFO @ Tue, 09 Oct 2018 22:49:54: 9000000 INFO @ Tue, 09 Oct 2018 22:50:00: 11000000 INFO @ Tue, 09 Oct 2018 22:50:03: 10000000 INFO @ Tue, 09 Oct 2018 22:50:03: 10000000 INFO @ Tue, 09 Oct 2018 22:50:08: 12000000 INFO @ Tue, 09 Oct 2018 22:50:12: 11000000 INFO @ Tue, 09 Oct 2018 22:50:12: 11000000 INFO @ Tue, 09 Oct 2018 22:50:16: 13000000 INFO @ Tue, 09 Oct 2018 22:50:21: 12000000 INFO @ Tue, 09 Oct 2018 22:50:21: 12000000 INFO @ Tue, 09 Oct 2018 22:50:24: 14000000 INFO @ Tue, 09 Oct 2018 22:50:30: 13000000 INFO @ Tue, 09 Oct 2018 22:50:30: 13000000 INFO @ Tue, 09 Oct 2018 22:50:32: 15000000 INFO @ Tue, 09 Oct 2018 22:50:39: 14000000 INFO @ Tue, 09 Oct 2018 22:50:39: 14000000 INFO @ Tue, 09 Oct 2018 22:50:40: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 09 Oct 2018 22:50:47: 17000000 INFO @ Tue, 09 Oct 2018 22:50:48: 15000000 INFO @ Tue, 09 Oct 2018 22:50:48: 15000000 INFO @ Tue, 09 Oct 2018 22:50:49: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 22:50:49: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 22:50:49: #1 total tags in treatment: 17228739 INFO @ Tue, 09 Oct 2018 22:50:49: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:50:49: #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 22:50:49: #1 tags after filtering in treatment: 17228739 INFO @ Tue, 09 Oct 2018 22:50:49: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:50:49: #1 finished! INFO @ Tue, 09 Oct 2018 22:50:49: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:50:49: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:50:50: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:50:50: 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 22:50:50: Process for pairing-model is terminated! cat: SRX4003429.05_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 `SRX4003429.05_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 `SRX4003429.05_*.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 `SRX4003429.05_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 22:50:57: 16000000 INFO @ Tue, 09 Oct 2018 22:50:57: 16000000 BigWig に変換しました。 INFO @ Tue, 09 Oct 2018 22:51:07: 17000000 INFO @ Tue, 09 Oct 2018 22:51:07: 17000000 INFO @ Tue, 09 Oct 2018 22:51:08: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 22:51:08: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 22:51:08: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 22:51:08: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 22:51:08: #1 total tags in treatment: 17228739 INFO @ Tue, 09 Oct 2018 22:51:08: #1 total tags in treatment: 17228739 INFO @ Tue, 09 Oct 2018 22:51:08: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:51:08: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:51:08: #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 22:51:08: #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 22:51:09: #1 tags after filtering in treatment: 17228739 INFO @ Tue, 09 Oct 2018 22:51:09: #1 tags after filtering in treatment: 17228739 INFO @ Tue, 09 Oct 2018 22:51:09: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:51:09: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:51:09: #1 finished! INFO @ Tue, 09 Oct 2018 22:51:09: #1 finished! INFO @ Tue, 09 Oct 2018 22:51:09: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:51:09: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:51:09: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:51:09: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:51:10: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:51:10: 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 22:51:10: Process for pairing-model is terminated! INFO @ Tue, 09 Oct 2018 22:51:10: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:51:10: 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 22:51:10: Process for pairing-model is terminated! cat: SRX4003429.10_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: SRX4003429.20_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) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4003429.10_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 `SRX4003429.10_*.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 `SRX4003429.10_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 rm: cannot remove `SRX4003429.20_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 `SRX4003429.20_*.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 `SRX4003429.20_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