Job ID = 11296200 sra ファイルのダウンロード中... Completed: 412164K bytes transferred in 16 seconds (209488K 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 16018993 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2969167/SRR5770154.sra Written 16018993 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2969167/SRR5770154.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: 00:03:26 16018993 reads; of these: 16018993 (100.00%) were unpaired; of these: 329464 (2.06%) aligned 0 times 13909910 (86.83%) aligned exactly 1 time 1779619 (11.11%) aligned >1 times 97.94% overall alignment rate Time searching: 00:03:26 Overall time: 00:03:26 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 8 files... [bam_rmdupse_core] 4876689 / 15689529 = 0.3108 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, 05 Nov 2018 17:43:58: # Command line: callpeak -t SRX2969167.bam -f BAM -g 12100000 -n SRX2969167.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2969167.05 # format = BAM # ChIP-seq file = ['SRX2969167.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 @ Mon, 05 Nov 2018 17:43:58: #1 read tag files... INFO @ Mon, 05 Nov 2018 17:43:58: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 17:43:58: # Command line: callpeak -t SRX2969167.bam -f BAM -g 12100000 -n SRX2969167.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2969167.10 # format = BAM # ChIP-seq file = ['SRX2969167.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 @ Mon, 05 Nov 2018 17:43:58: #1 read tag files... INFO @ Mon, 05 Nov 2018 17:43:58: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 17:43:58: # Command line: callpeak -t SRX2969167.bam -f BAM -g 12100000 -n SRX2969167.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2969167.20 # format = BAM # ChIP-seq file = ['SRX2969167.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 @ Mon, 05 Nov 2018 17:43:58: #1 read tag files... INFO @ Mon, 05 Nov 2018 17:43:58: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 17:44:05: 1000000 INFO @ Mon, 05 Nov 2018 17:44:05: 1000000 INFO @ Mon, 05 Nov 2018 17:44:05: 1000000 INFO @ Mon, 05 Nov 2018 17:44:12: 2000000 INFO @ Mon, 05 Nov 2018 17:44:12: 2000000 INFO @ Mon, 05 Nov 2018 17:44:12: 2000000 INFO @ Mon, 05 Nov 2018 17:44:18: 3000000 INFO @ Mon, 05 Nov 2018 17:44:18: 3000000 INFO @ Mon, 05 Nov 2018 17:44:19: 3000000 INFO @ Mon, 05 Nov 2018 17:44:25: 4000000 INFO @ Mon, 05 Nov 2018 17:44:25: 4000000 INFO @ Mon, 05 Nov 2018 17:44:26: 4000000 INFO @ Mon, 05 Nov 2018 17:44:32: 5000000 INFO @ Mon, 05 Nov 2018 17:44:32: 5000000 INFO @ Mon, 05 Nov 2018 17:44:32: 5000000 INFO @ Mon, 05 Nov 2018 17:44:38: 6000000 INFO @ Mon, 05 Nov 2018 17:44:38: 6000000 INFO @ Mon, 05 Nov 2018 17:44:39: 6000000 INFO @ Mon, 05 Nov 2018 17:44:45: 7000000 INFO @ Mon, 05 Nov 2018 17:44:45: 7000000 INFO @ Mon, 05 Nov 2018 17:44:45: 7000000 INFO @ Mon, 05 Nov 2018 17:44:51: 8000000 INFO @ Mon, 05 Nov 2018 17:44:51: 8000000 INFO @ Mon, 05 Nov 2018 17:44:52: 8000000 INFO @ Mon, 05 Nov 2018 17:44:58: 9000000 INFO @ Mon, 05 Nov 2018 17:44:58: 9000000 INFO @ Mon, 05 Nov 2018 17:44:59: 9000000 INFO @ Mon, 05 Nov 2018 17:45:05: 10000000 INFO @ Mon, 05 Nov 2018 17:45:06: 10000000 INFO @ Mon, 05 Nov 2018 17:45:07: 10000000 INFO @ Mon, 05 Nov 2018 17:45:11: #1 tag size is determined as 50 bps INFO @ Mon, 05 Nov 2018 17:45:11: #1 tag size = 50 INFO @ Mon, 05 Nov 2018 17:45:11: #1 total tags in treatment: 10812840 INFO @ Mon, 05 Nov 2018 17:45:11: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 17:45:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 05 Nov 2018 17:45:12: #1 tag size is determined as 50 bps INFO @ Mon, 05 Nov 2018 17:45:12: #1 tag size = 50 INFO @ Mon, 05 Nov 2018 17:45:12: #1 total tags in treatment: 10812840 INFO @ Mon, 05 Nov 2018 17:45:12: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 17:45:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 05 Nov 2018 17:45:12: #1 tags after filtering in treatment: 10812840 INFO @ Mon, 05 Nov 2018 17:45:12: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 17:45:12: #1 finished! INFO @ Mon, 05 Nov 2018 17:45:12: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 17:45:12: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 17:45:12: #1 tags after filtering in treatment: 10812840 INFO @ Mon, 05 Nov 2018 17:45:12: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 17:45:12: #1 finished! INFO @ Mon, 05 Nov 2018 17:45:12: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 17:45:12: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 17:45:12: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 17:45:12: 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 @ Mon, 05 Nov 2018 17:45:12: Process for pairing-model is terminated! cat: SRX2969167.20_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 `SRX2969167.20_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 `SRX2969167.20_*.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 `SRX2969167.20_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, 05 Nov 2018 17:45:13: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 17:45:13: 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 @ Mon, 05 Nov 2018 17:45:13: Process for pairing-model is terminated! cat: SRX2969167.05_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 `SRX2969167.05_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 `SRX2969167.05_*.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 `SRX2969167.05_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, 05 Nov 2018 17:45:13: #1 tag size is determined as 50 bps INFO @ Mon, 05 Nov 2018 17:45:13: #1 tag size = 50 INFO @ Mon, 05 Nov 2018 17:45:13: #1 total tags in treatment: 10812840 INFO @ Mon, 05 Nov 2018 17:45:13: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 17:45:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 05 Nov 2018 17:45:14: #1 tags after filtering in treatment: 10812840 INFO @ Mon, 05 Nov 2018 17:45:14: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 17:45:14: #1 finished! INFO @ Mon, 05 Nov 2018 17:45:14: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 17:45:14: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 17:45:14: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 17:45:14: 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 @ Mon, 05 Nov 2018 17:45:14: Process for pairing-model is terminated! cat: SRX2969167.10_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 `SRX2969167.10_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 `SRX2969167.10_*.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 `SRX2969167.10_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。