Job ID = 10536484 sra ファイルのダウンロード中... Completed: 1310654K bytes transferred in 46 seconds (229768K 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... Written 29962926 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671180/SRR6696932.sra Written 29962926 spots total 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: 00:23:50 29962926 reads; of these: 29962926 (100.00%) were paired; of these: 1964344 (6.56%) aligned concordantly 0 times 24966164 (83.32%) aligned concordantly exactly 1 time 3032418 (10.12%) aligned concordantly >1 times ---- 1964344 pairs aligned concordantly 0 times; of these: 45331 (2.31%) aligned discordantly 1 time ---- 1919013 pairs aligned 0 times concordantly or discordantly; of these: 3838026 mates make up the pairs; of these: 3575148 (93.15%) aligned 0 times 214214 (5.58%) aligned exactly 1 time 48664 (1.27%) aligned >1 times 94.03% overall alignment rate Time searching: 00:23:50 Overall time: 00:23:50 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 24 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] 16916858 / 28005274 = 0.6041 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 @ Thu, 05 Apr 2018 10:12:42: # Command line: callpeak -t SRX3671180.bam -f BAM -g 12100000 -n SRX3671180.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671180.05 # format = BAM # ChIP-seq file = ['SRX3671180.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 @ Thu, 05 Apr 2018 10:12:42: # Command line: callpeak -t SRX3671180.bam -f BAM -g 12100000 -n SRX3671180.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671180.20 # format = BAM # ChIP-seq file = ['SRX3671180.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 @ Thu, 05 Apr 2018 10:12:42: # Command line: callpeak -t SRX3671180.bam -f BAM -g 12100000 -n SRX3671180.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671180.10 # format = BAM # ChIP-seq file = ['SRX3671180.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 @ Thu, 05 Apr 2018 10:12:42: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:12:42: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:12:42: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:12:42: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:12:42: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:12:42: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:12:48: 1000000 INFO @ Thu, 05 Apr 2018 10:12:48: 1000000 INFO @ Thu, 05 Apr 2018 10:12:48: 1000000 INFO @ Thu, 05 Apr 2018 10:12:54: 2000000 INFO @ Thu, 05 Apr 2018 10:12:54: 2000000 INFO @ Thu, 05 Apr 2018 10:12:54: 2000000 INFO @ Thu, 05 Apr 2018 10:12:59: 3000000 INFO @ Thu, 05 Apr 2018 10:12:59: 3000000 INFO @ Thu, 05 Apr 2018 10:13:00: 3000000 INFO @ Thu, 05 Apr 2018 10:13:05: 4000000 INFO @ Thu, 05 Apr 2018 10:13:05: 4000000 INFO @ Thu, 05 Apr 2018 10:13:06: 4000000 INFO @ Thu, 05 Apr 2018 10:13:10: 5000000 INFO @ Thu, 05 Apr 2018 10:13:11: 5000000 INFO @ Thu, 05 Apr 2018 10:13:11: 5000000 INFO @ Thu, 05 Apr 2018 10:13:16: 6000000 INFO @ Thu, 05 Apr 2018 10:13:16: 6000000 INFO @ Thu, 05 Apr 2018 10:13:17: 6000000 INFO @ Thu, 05 Apr 2018 10:13:21: 7000000 INFO @ Thu, 05 Apr 2018 10:13:22: 7000000 INFO @ Thu, 05 Apr 2018 10:13:23: 7000000 INFO @ Thu, 05 Apr 2018 10:13:27: 8000000 INFO @ Thu, 05 Apr 2018 10:13:28: 8000000 INFO @ Thu, 05 Apr 2018 10:13:28: 8000000 INFO @ Thu, 05 Apr 2018 10:13:32: 9000000 INFO @ Thu, 05 Apr 2018 10:13:33: 9000000 INFO @ Thu, 05 Apr 2018 10:13:34: 9000000 INFO @ Thu, 05 Apr 2018 10:13:38: 10000000 INFO @ Thu, 05 Apr 2018 10:13:39: 10000000 INFO @ Thu, 05 Apr 2018 10:13:40: 10000000 INFO @ Thu, 05 Apr 2018 10:13:43: 11000000 INFO @ Thu, 05 Apr 2018 10:13:45: 11000000 INFO @ Thu, 05 Apr 2018 10:13:46: 11000000 INFO @ Thu, 05 Apr 2018 10:13:49: 12000000 INFO @ Thu, 05 Apr 2018 10:13:50: 12000000 INFO @ Thu, 05 Apr 2018 10:13:52: 12000000 INFO @ Thu, 05 Apr 2018 10:13:54: 13000000 INFO @ Thu, 05 Apr 2018 10:13:56: 13000000 INFO @ Thu, 05 Apr 2018 10:13:58: 13000000 INFO @ Thu, 05 Apr 2018 10:14:00: 14000000 INFO @ Thu, 05 Apr 2018 10:14:01: 14000000 INFO @ Thu, 05 Apr 2018 10:14:04: 14000000 INFO @ Thu, 05 Apr 2018 10:14:05: 15000000 INFO @ Thu, 05 Apr 2018 10:14:07: 15000000 INFO @ Thu, 05 Apr 2018 10:14:09: 15000000 INFO @ Thu, 05 Apr 2018 10:14:11: 16000000 INFO @ Thu, 05 Apr 2018 10:14:13: 16000000 INFO @ Thu, 05 Apr 2018 10:14:15: 16000000 INFO @ Thu, 05 Apr 2018 10:14:16: 17000000 INFO @ Thu, 05 Apr 2018 10:14:18: 17000000 INFO @ Thu, 05 Apr 2018 10:14:21: 17000000 INFO @ Thu, 05 Apr 2018 10:14:22: 18000000 INFO @ Thu, 05 Apr 2018 10:14:24: 18000000 INFO @ Thu, 05 Apr 2018 10:14:27: 19000000 INFO @ Thu, 05 Apr 2018 10:14:28: 18000000 INFO @ Thu, 05 Apr 2018 10:14:31: 19000000 INFO @ Thu, 05 Apr 2018 10:14:33: 20000000 INFO @ Thu, 05 Apr 2018 10:14:33: 19000000 INFO @ Thu, 05 Apr 2018 10:14:37: 20000000 INFO @ Thu, 05 Apr 2018 10:14:38: 21000000 INFO @ Thu, 05 Apr 2018 10:14:39: 20000000 INFO @ Thu, 05 Apr 2018 10:14:43: 21000000 INFO @ Thu, 05 Apr 2018 10:14:44: 22000000 INFO @ Thu, 05 Apr 2018 10:14:44: 21000000 INFO @ Thu, 05 Apr 2018 10:14:47: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:14:47: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:14:47: #1 total tags in treatment: 11084802 INFO @ Thu, 05 Apr 2018 10:14:47: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:14:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:14:47: #1 tags after filtering in treatment: 8131818 INFO @ Thu, 05 Apr 2018 10:14:47: #1 Redundant rate of treatment: 0.27 INFO @ Thu, 05 Apr 2018 10:14:47: #1 finished! INFO @ Thu, 05 Apr 2018 10:14:47: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:14:47: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:14:47: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:14:47: 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 @ Thu, 05 Apr 2018 10:14:47: Process for pairing-model is terminated! cat: SRX3671180.20_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 `SRX3671180.20_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 `SRX3671180.20_*.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 `SRX3671180.20_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 @ Thu, 05 Apr 2018 10:14:49: 22000000 INFO @ Thu, 05 Apr 2018 10:14:50: 22000000 INFO @ Thu, 05 Apr 2018 10:14:52: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:14:52: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:14:52: #1 total tags in treatment: 11084802 INFO @ Thu, 05 Apr 2018 10:14:52: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:14:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:14:52: #1 tags after filtering in treatment: 8131818 INFO @ Thu, 05 Apr 2018 10:14:52: #1 Redundant rate of treatment: 0.27 INFO @ Thu, 05 Apr 2018 10:14:52: #1 finished! INFO @ Thu, 05 Apr 2018 10:14:52: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:14:52: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:14:52: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:14:52: 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 @ Thu, 05 Apr 2018 10:14:52: Process for pairing-model is terminated! cat: SRX3671180.10_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 `SRX3671180.10_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 `SRX3671180.10_*.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 `SRX3671180.10_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 @ Thu, 05 Apr 2018 10:14:52: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:14:52: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:14:52: #1 total tags in treatment: 11084802 INFO @ Thu, 05 Apr 2018 10:14:52: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:14:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:14:53: #1 tags after filtering in treatment: 8131818 INFO @ Thu, 05 Apr 2018 10:14:53: #1 Redundant rate of treatment: 0.27 INFO @ Thu, 05 Apr 2018 10:14:53: #1 finished! INFO @ Thu, 05 Apr 2018 10:14:53: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:14:53: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:14:53: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:14:53: 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 @ Thu, 05 Apr 2018 10:14:53: Process for pairing-model is terminated! cat: SRX3671180.05_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3671180.05_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 `SRX3671180.05_*.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 `SRX3671180.05_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。