Job ID = 10937445 sra ファイルのダウンロード中... Completed: 546774K bytes transferred in 6 seconds (736010K 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 9971325 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2198731/SRR4304461.sra Written 9971325 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2198731/SRR4304461.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: 00:09:39 9971325 reads; of these: 9971325 (100.00%) were paired; of these: 1134621 (11.38%) aligned concordantly 0 times 6321704 (63.40%) aligned concordantly exactly 1 time 2515000 (25.22%) aligned concordantly >1 times ---- 1134621 pairs aligned concordantly 0 times; of these: 249780 (22.01%) aligned discordantly 1 time ---- 884841 pairs aligned 0 times concordantly or discordantly; of these: 1769682 mates make up the pairs; of these: 1422613 (80.39%) aligned 0 times 105562 (5.97%) aligned exactly 1 time 241507 (13.65%) aligned >1 times 92.87% overall alignment rate Time searching: 00:09:39 Overall time: 00:09:39 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_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] 580727 / 9050293 = 0.0642 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 @ Fri, 10 Aug 2018 02:21:18: # Command line: callpeak -t SRX2198731.bam -f BAM -g 12100000 -n SRX2198731.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2198731.10 # format = BAM # ChIP-seq file = ['SRX2198731.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 @ Fri, 10 Aug 2018 02:21:18: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:21:18: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:21:18: # Command line: callpeak -t SRX2198731.bam -f BAM -g 12100000 -n SRX2198731.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2198731.20 # format = BAM # ChIP-seq file = ['SRX2198731.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 @ Fri, 10 Aug 2018 02:21:18: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:21:18: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:21:18: # Command line: callpeak -t SRX2198731.bam -f BAM -g 12100000 -n SRX2198731.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2198731.05 # format = BAM # ChIP-seq file = ['SRX2198731.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 @ Fri, 10 Aug 2018 02:21:18: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:21:18: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:21:26: 1000000 INFO @ Fri, 10 Aug 2018 02:21:26: 1000000 INFO @ Fri, 10 Aug 2018 02:21:26: 1000000 INFO @ Fri, 10 Aug 2018 02:21:33: 2000000 INFO @ Fri, 10 Aug 2018 02:21:35: 2000000 INFO @ Fri, 10 Aug 2018 02:21:35: 2000000 INFO @ Fri, 10 Aug 2018 02:21:41: 3000000 INFO @ Fri, 10 Aug 2018 02:21:43: 3000000 INFO @ Fri, 10 Aug 2018 02:21:43: 3000000 INFO @ Fri, 10 Aug 2018 02:21:48: 4000000 INFO @ Fri, 10 Aug 2018 02:21:52: 4000000 INFO @ Fri, 10 Aug 2018 02:21:52: 4000000 INFO @ Fri, 10 Aug 2018 02:21:56: 5000000 INFO @ Fri, 10 Aug 2018 02:22:00: 5000000 INFO @ Fri, 10 Aug 2018 02:22:00: 5000000 INFO @ Fri, 10 Aug 2018 02:22:03: 6000000 INFO @ Fri, 10 Aug 2018 02:22:09: 6000000 INFO @ Fri, 10 Aug 2018 02:22:09: 6000000 INFO @ Fri, 10 Aug 2018 02:22:10: 7000000 INFO @ Fri, 10 Aug 2018 02:22:17: 8000000 INFO @ Fri, 10 Aug 2018 02:22:18: 7000000 INFO @ Fri, 10 Aug 2018 02:22:18: 7000000 INFO @ Fri, 10 Aug 2018 02:22:25: 9000000 INFO @ Fri, 10 Aug 2018 02:22:27: 8000000 INFO @ Fri, 10 Aug 2018 02:22:27: 8000000 INFO @ Fri, 10 Aug 2018 02:22:33: 10000000 INFO @ Fri, 10 Aug 2018 02:22:35: 9000000 INFO @ Fri, 10 Aug 2018 02:22:35: 9000000 INFO @ Fri, 10 Aug 2018 02:22:40: 11000000 INFO @ Fri, 10 Aug 2018 02:22:43: 10000000 INFO @ Fri, 10 Aug 2018 02:22:43: 10000000 INFO @ Fri, 10 Aug 2018 02:22:48: 12000000 INFO @ Fri, 10 Aug 2018 02:22:51: 11000000 INFO @ Fri, 10 Aug 2018 02:22:51: 11000000 INFO @ Fri, 10 Aug 2018 02:22:55: 13000000 INFO @ Fri, 10 Aug 2018 02:23:00: 12000000 INFO @ Fri, 10 Aug 2018 02:23:00: 12000000 INFO @ Fri, 10 Aug 2018 02:23:03: 14000000 INFO @ Fri, 10 Aug 2018 02:23:09: 13000000 INFO @ Fri, 10 Aug 2018 02:23:09: 13000000 INFO @ Fri, 10 Aug 2018 02:23:11: 15000000 INFO @ Fri, 10 Aug 2018 02:23:17: 14000000 INFO @ Fri, 10 Aug 2018 02:23:17: 14000000 INFO @ Fri, 10 Aug 2018 02:23:19: 16000000 INFO @ Fri, 10 Aug 2018 02:23:26: 15000000 INFO @ Fri, 10 Aug 2018 02:23:26: 15000000 INFO @ Fri, 10 Aug 2018 02:23:27: 17000000 INFO @ Fri, 10 Aug 2018 02:23:30: #1 tag size is determined as 39 bps INFO @ Fri, 10 Aug 2018 02:23:30: #1 tag size = 39 INFO @ Fri, 10 Aug 2018 02:23:30: #1 total tags in treatment: 8261876 INFO @ Fri, 10 Aug 2018 02:23:30: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:23:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 02:23:30: #1 tags after filtering in treatment: 4526853 INFO @ Fri, 10 Aug 2018 02:23:30: #1 Redundant rate of treatment: 0.45 INFO @ Fri, 10 Aug 2018 02:23:30: #1 finished! INFO @ Fri, 10 Aug 2018 02:23:30: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:23:30: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:23:30: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 02:23:30: 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 @ Fri, 10 Aug 2018 02:23:30: Process for pairing-model is terminated! cat: SRX2198731.10_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 `SRX2198731.10_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 `SRX2198731.10_*.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 `SRX2198731.10_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 @ Fri, 10 Aug 2018 02:23:35: 16000000 INFO @ Fri, 10 Aug 2018 02:23:35: 16000000 INFO @ Fri, 10 Aug 2018 02:23:43: 17000000 INFO @ Fri, 10 Aug 2018 02:23:43: 17000000 INFO @ Fri, 10 Aug 2018 02:23:46: #1 tag size is determined as 39 bps INFO @ Fri, 10 Aug 2018 02:23:46: #1 tag size = 39 INFO @ Fri, 10 Aug 2018 02:23:46: #1 total tags in treatment: 8261876 INFO @ Fri, 10 Aug 2018 02:23:46: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:23:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 02:23:46: #1 tag size is determined as 39 bps INFO @ Fri, 10 Aug 2018 02:23:46: #1 tag size = 39 INFO @ Fri, 10 Aug 2018 02:23:46: #1 total tags in treatment: 8261876 INFO @ Fri, 10 Aug 2018 02:23:46: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:23:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 02:23:46: #1 tags after filtering in treatment: 4526853 INFO @ Fri, 10 Aug 2018 02:23:46: #1 Redundant rate of treatment: 0.45 INFO @ Fri, 10 Aug 2018 02:23:46: #1 finished! INFO @ Fri, 10 Aug 2018 02:23:46: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:23:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:23:46: #1 tags after filtering in treatment: 4526853 INFO @ Fri, 10 Aug 2018 02:23:46: #1 Redundant rate of treatment: 0.45 INFO @ Fri, 10 Aug 2018 02:23:46: #1 finished! INFO @ Fri, 10 Aug 2018 02:23:46: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:23:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:23:46: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 02:23:46: 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 @ Fri, 10 Aug 2018 02:23:46: Process for pairing-model is terminated! INFO @ Fri, 10 Aug 2018 02:23:46: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 02:23:46: 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 @ Fri, 10 Aug 2018 02:23:46: Process for pairing-model is terminated! cat: SRX2198731.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX2198731.20_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 pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2198731.05_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: rm: cannot remove `SRX2198731.20_model.r'cannot remove `SRX2198731.05_*.xls': そのようなファイルやディレクトリはありません : 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 `SRX2198731.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2198731.20_*.xls': 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 `SRX2198731.20_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。