Job ID = 11244859 sra ファイルのダウンロード中... Completed: 1236477K bytes transferred in 15 seconds (670761K 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: PAIRED fastq に変換中... Read 12760639 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3765652/SRR6807375.sra Written 12760639 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3765652/SRR6807375.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: 00:17:05 12760639 reads; of these: 12760639 (100.00%) were paired; of these: 321246 (2.52%) aligned concordantly 0 times 11115245 (87.11%) aligned concordantly exactly 1 time 1324148 (10.38%) aligned concordantly >1 times ---- 321246 pairs aligned concordantly 0 times; of these: 75169 (23.40%) aligned discordantly 1 time ---- 246077 pairs aligned 0 times concordantly or discordantly; of these: 492154 mates make up the pairs; of these: 343981 (69.89%) aligned 0 times 113985 (23.16%) aligned exactly 1 time 34188 (6.95%) aligned >1 times 98.65% overall alignment rate Time searching: 00:17:05 Overall time: 00:17:05 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 12 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 1821078 / 12359929 = 0.1473 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 22:41:12: # Command line: callpeak -t SRX3765652.bam -f BAM -g 12100000 -n SRX3765652.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3765652.10 # format = BAM # ChIP-seq file = ['SRX3765652.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 22:41:12: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:41:12: # Command line: callpeak -t SRX3765652.bam -f BAM -g 12100000 -n SRX3765652.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3765652.20 # format = BAM # ChIP-seq file = ['SRX3765652.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 22:41:12: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:41:12: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:41:12: # Command line: callpeak -t SRX3765652.bam -f BAM -g 12100000 -n SRX3765652.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3765652.05 # format = BAM # ChIP-seq file = ['SRX3765652.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 22:41:12: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:41:12: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:41:12: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:41:20: 1000000 INFO @ Tue, 09 Oct 2018 22:41:20: 1000000 INFO @ Tue, 09 Oct 2018 22:41:20: 1000000 INFO @ Tue, 09 Oct 2018 22:41:28: 2000000 INFO @ Tue, 09 Oct 2018 22:41:28: 2000000 INFO @ Tue, 09 Oct 2018 22:41:29: 2000000 INFO @ Tue, 09 Oct 2018 22:41:36: 3000000 INFO @ Tue, 09 Oct 2018 22:41:36: 3000000 INFO @ Tue, 09 Oct 2018 22:41:37: 3000000 INFO @ Tue, 09 Oct 2018 22:41:44: 4000000 INFO @ Tue, 09 Oct 2018 22:41:44: 4000000 INFO @ Tue, 09 Oct 2018 22:41:45: 4000000 INFO @ Tue, 09 Oct 2018 22:41:52: 5000000 INFO @ Tue, 09 Oct 2018 22:41:53: 5000000 INFO @ Tue, 09 Oct 2018 22:41:53: 5000000 INFO @ Tue, 09 Oct 2018 22:42:01: 6000000 INFO @ Tue, 09 Oct 2018 22:42:01: 6000000 INFO @ Tue, 09 Oct 2018 22:42:01: 6000000 INFO @ Tue, 09 Oct 2018 22:42:09: 7000000 INFO @ Tue, 09 Oct 2018 22:42:09: 7000000 INFO @ Tue, 09 Oct 2018 22:42:09: 7000000 INFO @ Tue, 09 Oct 2018 22:42:17: 8000000 INFO @ Tue, 09 Oct 2018 22:42:18: 8000000 INFO @ Tue, 09 Oct 2018 22:42:18: 8000000 INFO @ Tue, 09 Oct 2018 22:42:25: 9000000 INFO @ Tue, 09 Oct 2018 22:42:26: 9000000 INFO @ Tue, 09 Oct 2018 22:42:26: 9000000 INFO @ Tue, 09 Oct 2018 22:42:34: 10000000 INFO @ Tue, 09 Oct 2018 22:42:35: 10000000 INFO @ Tue, 09 Oct 2018 22:42:35: 10000000 INFO @ Tue, 09 Oct 2018 22:42:43: 11000000 INFO @ Tue, 09 Oct 2018 22:42:44: 11000000 INFO @ Tue, 09 Oct 2018 22:42:44: 11000000 INFO @ Tue, 09 Oct 2018 22:42:53: 12000000 INFO @ Tue, 09 Oct 2018 22:42:53: 12000000 INFO @ Tue, 09 Oct 2018 22:42:53: 12000000 INFO @ Tue, 09 Oct 2018 22:43:02: 13000000 INFO @ Tue, 09 Oct 2018 22:43:02: 13000000 INFO @ Tue, 09 Oct 2018 22:43:02: 13000000 INFO @ Tue, 09 Oct 2018 22:43:11: 14000000 INFO @ Tue, 09 Oct 2018 22:43:11: 14000000 INFO @ Tue, 09 Oct 2018 22:43:11: 14000000 INFO @ Tue, 09 Oct 2018 22:43:19: 15000000 INFO @ Tue, 09 Oct 2018 22:43:19: 15000000 INFO @ Tue, 09 Oct 2018 22:43:19: 15000000 INFO @ Tue, 09 Oct 2018 22:43:28: 16000000 INFO @ Tue, 09 Oct 2018 22:43:28: 16000000 INFO @ Tue, 09 Oct 2018 22:43:28: 16000000 INFO @ Tue, 09 Oct 2018 22:43:37: 17000000 INFO @ Tue, 09 Oct 2018 22:43:37: 17000000 INFO @ Tue, 09 Oct 2018 22:43:37: 17000000 INFO @ Tue, 09 Oct 2018 22:43:46: 18000000 INFO @ Tue, 09 Oct 2018 22:43:46: 18000000 INFO @ Tue, 09 Oct 2018 22:43:46: 18000000 INFO @ Tue, 09 Oct 2018 22:43:55: 19000000 INFO @ Tue, 09 Oct 2018 22:43:55: 19000000 INFO @ Tue, 09 Oct 2018 22:43:55: 19000000 INFO @ Tue, 09 Oct 2018 22:44:03: 20000000 INFO @ Tue, 09 Oct 2018 22:44:03: 20000000 INFO @ Tue, 09 Oct 2018 22:44:03: 20000000 INFO @ Tue, 09 Oct 2018 22:44:11: 21000000 INFO @ Tue, 09 Oct 2018 22:44:12: 21000000 INFO @ Tue, 09 Oct 2018 22:44:12: 21000000 INFO @ Tue, 09 Oct 2018 22:44:16: #1 tag size is determined as 100 bps INFO @ Tue, 09 Oct 2018 22:44:16: #1 tag size = 100 INFO @ Tue, 09 Oct 2018 22:44:16: #1 total tags in treatment: 10620489 INFO @ Tue, 09 Oct 2018 22:44:16: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:44:16: #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 22:44:16: #1 tags after filtering in treatment: 5683269 INFO @ Tue, 09 Oct 2018 22:44:16: #1 Redundant rate of treatment: 0.46 INFO @ Tue, 09 Oct 2018 22:44:16: #1 finished! INFO @ Tue, 09 Oct 2018 22:44:16: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:44:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:44:16: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:44:16: 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 22:44:16: Process for pairing-model is terminated! cat: SRX3765652.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Tue, 09 Oct 2018 22:44:16: #1 tag size is determined as 100 bps INFO @ Tue, 09 Oct 2018 22:44:16: #1 tag size = 100 INFO @ Tue, 09 Oct 2018 22:44:16: #1 total tags in treatment: 10620489 INFO @ Tue, 09 Oct 2018 22:44:16: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:44:16: #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 22:44:16: #1 tag size is determined as 100 bps INFO @ Tue, 09 Oct 2018 22:44:16: #1 tag size = 100 INFO @ Tue, 09 Oct 2018 22:44:16: #1 total tags in treatment: 10620489 INFO @ Tue, 09 Oct 2018 22:44:16: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:44:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3765652.10_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 `SRX3765652.10_*.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 `SRX3765652.10_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 @ Tue, 09 Oct 2018 22:44:17: #1 tags after filtering in treatment: 5683269 INFO @ Tue, 09 Oct 2018 22:44:17: #1 Redundant rate of treatment: 0.46 INFO @ Tue, 09 Oct 2018 22:44:17: #1 finished! INFO @ Tue, 09 Oct 2018 22:44:17: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:44:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:44:17: #1 tags after filtering in treatment: 5683269 INFO @ Tue, 09 Oct 2018 22:44:17: #1 Redundant rate of treatment: 0.46 INFO @ Tue, 09 Oct 2018 22:44:17: #1 finished! INFO @ Tue, 09 Oct 2018 22:44:17: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:44:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:44:17: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:44:17: 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 22:44:17: Process for pairing-model is terminated! INFO @ Tue, 09 Oct 2018 22:44:17: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:44:17: 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 22:44:17: Process for pairing-model is terminated! cat: SRX3765652.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX3765652.05_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 `SRX3765652.20_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 `SRX3765652.20_*.xls': 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 rm: cannot remove `SRX3765652.20_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 needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3765652.05_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 `SRX3765652.05_*.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 `SRX3765652.05_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。