Job ID = 9302918 sra ファイルのダウンロード中... Completed: 700535K bytes transferred in 16 seconds (341250K bits/sec), in 2 files, 3 directories. 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 7478679 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2961323/SRR5761571.sra Written 7478679 spots total Written 7708497 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2961323/SRR5761570.sra Written 7708497 spots total 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: 00:12:06 15187176 reads; of these: 15187176 (100.00%) were paired; of these: 1319763 (8.69%) aligned concordantly 0 times 11814924 (77.80%) aligned concordantly exactly 1 time 2052489 (13.51%) aligned concordantly >1 times ---- 1319763 pairs aligned concordantly 0 times; of these: 116378 (8.82%) aligned discordantly 1 time ---- 1203385 pairs aligned 0 times concordantly or discordantly; of these: 2406770 mates make up the pairs; of these: 1993497 (82.83%) aligned 0 times 263402 (10.94%) aligned exactly 1 time 149871 (6.23%) aligned >1 times 93.44% overall alignment rate Time searching: 00:12:06 Overall time: 00:12:06 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] 1966626 / 13889824 = 0.1416 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, 28 Jul 2017 11:50:37: # Command line: callpeak -t SRX2961323.bam -f BAM -g 12100000 -n SRX2961323.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2961323.05 # format = BAM # ChIP-seq file = ['SRX2961323.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, 28 Jul 2017 11:50:37: # Command line: callpeak -t SRX2961323.bam -f BAM -g 12100000 -n SRX2961323.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2961323.20 # format = BAM # ChIP-seq file = ['SRX2961323.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, 28 Jul 2017 11:50:37: # Command line: callpeak -t SRX2961323.bam -f BAM -g 12100000 -n SRX2961323.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2961323.10 # format = BAM # ChIP-seq file = ['SRX2961323.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, 28 Jul 2017 11:50:37: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:50:37: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:50:37: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:50:37: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:50:37: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:50:37: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:50:44: 1000000 INFO @ Fri, 28 Jul 2017 11:50:44: 1000000 INFO @ Fri, 28 Jul 2017 11:50:44: 1000000 INFO @ Fri, 28 Jul 2017 11:50:51: 2000000 INFO @ Fri, 28 Jul 2017 11:50:52: 2000000 INFO @ Fri, 28 Jul 2017 11:50:52: 2000000 INFO @ Fri, 28 Jul 2017 11:50:59: 3000000 INFO @ Fri, 28 Jul 2017 11:50:59: 3000000 INFO @ Fri, 28 Jul 2017 11:50:59: 3000000 INFO @ Fri, 28 Jul 2017 11:51:06: 4000000 INFO @ Fri, 28 Jul 2017 11:51:06: 4000000 INFO @ Fri, 28 Jul 2017 11:51:06: 4000000 INFO @ Fri, 28 Jul 2017 11:51:13: 5000000 INFO @ Fri, 28 Jul 2017 11:51:13: 5000000 INFO @ Fri, 28 Jul 2017 11:51:13: 5000000 INFO @ Fri, 28 Jul 2017 11:51:20: 6000000 INFO @ Fri, 28 Jul 2017 11:51:20: 6000000 INFO @ Fri, 28 Jul 2017 11:51:20: 6000000 INFO @ Fri, 28 Jul 2017 11:51:27: 7000000 INFO @ Fri, 28 Jul 2017 11:51:28: 7000000 INFO @ Fri, 28 Jul 2017 11:51:28: 7000000 INFO @ Fri, 28 Jul 2017 11:51:35: 8000000 INFO @ Fri, 28 Jul 2017 11:51:35: 8000000 INFO @ Fri, 28 Jul 2017 11:51:35: 8000000 INFO @ Fri, 28 Jul 2017 11:51:42: 9000000 INFO @ Fri, 28 Jul 2017 11:51:42: 9000000 INFO @ Fri, 28 Jul 2017 11:51:42: 9000000 INFO @ Fri, 28 Jul 2017 11:51:49: 10000000 INFO @ Fri, 28 Jul 2017 11:51:49: 10000000 INFO @ Fri, 28 Jul 2017 11:51:49: 10000000 INFO @ Fri, 28 Jul 2017 11:51:56: 11000000 INFO @ Fri, 28 Jul 2017 11:51:56: 11000000 INFO @ Fri, 28 Jul 2017 11:51:56: 11000000 INFO @ Fri, 28 Jul 2017 11:52:03: 12000000 INFO @ Fri, 28 Jul 2017 11:52:03: 12000000 INFO @ Fri, 28 Jul 2017 11:52:03: 12000000 INFO @ Fri, 28 Jul 2017 11:52:10: 13000000 INFO @ Fri, 28 Jul 2017 11:52:10: 13000000 INFO @ Fri, 28 Jul 2017 11:52:10: 13000000 INFO @ Fri, 28 Jul 2017 11:52:18: 14000000 INFO @ Fri, 28 Jul 2017 11:52:18: 14000000 INFO @ Fri, 28 Jul 2017 11:52:18: 14000000 INFO @ Fri, 28 Jul 2017 11:52:25: 15000000 INFO @ Fri, 28 Jul 2017 11:52:25: 15000000 INFO @ Fri, 28 Jul 2017 11:52:25: 15000000 INFO @ Fri, 28 Jul 2017 11:52:32: 16000000 INFO @ Fri, 28 Jul 2017 11:52:32: 16000000 INFO @ Fri, 28 Jul 2017 11:52:32: 16000000 INFO @ Fri, 28 Jul 2017 11:52:39: 17000000 INFO @ Fri, 28 Jul 2017 11:52:39: 17000000 INFO @ Fri, 28 Jul 2017 11:52:39: 17000000 INFO @ Fri, 28 Jul 2017 11:52:47: 18000000 INFO @ Fri, 28 Jul 2017 11:52:47: 18000000 INFO @ Fri, 28 Jul 2017 11:52:47: 18000000 INFO @ Fri, 28 Jul 2017 11:52:54: 19000000 INFO @ Fri, 28 Jul 2017 11:52:54: 19000000 INFO @ Fri, 28 Jul 2017 11:52:54: 19000000 INFO @ Fri, 28 Jul 2017 11:53:01: 20000000 INFO @ Fri, 28 Jul 2017 11:53:01: 20000000 INFO @ Fri, 28 Jul 2017 11:53:01: 20000000 INFO @ Fri, 28 Jul 2017 11:53:09: 21000000 INFO @ Fri, 28 Jul 2017 11:53:09: 21000000 INFO @ Fri, 28 Jul 2017 11:53:09: 21000000 INFO @ Fri, 28 Jul 2017 11:53:16: 22000000 INFO @ Fri, 28 Jul 2017 11:53:16: 22000000 INFO @ Fri, 28 Jul 2017 11:53:16: 22000000 INFO @ Fri, 28 Jul 2017 11:53:23: 23000000 INFO @ Fri, 28 Jul 2017 11:53:23: 23000000 INFO @ Fri, 28 Jul 2017 11:53:23: 23000000 INFO @ Fri, 28 Jul 2017 11:53:31: 24000000 INFO @ Fri, 28 Jul 2017 11:53:31: 24000000 INFO @ Fri, 28 Jul 2017 11:53:31: 24000000 INFO @ Fri, 28 Jul 2017 11:53:34: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 11:53:34: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 11:53:34: #1 total tags in treatment: 11902010 INFO @ Fri, 28 Jul 2017 11:53:34: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:53:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:53:34: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 11:53:34: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 11:53:34: #1 total tags in treatment: 11902010 INFO @ Fri, 28 Jul 2017 11:53:34: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:53:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:53:34: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 11:53:34: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 11:53:34: #1 total tags in treatment: 11902010 INFO @ Fri, 28 Jul 2017 11:53:34: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:53:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:53:34: #1 tags after filtering in treatment: 5912228 INFO @ Fri, 28 Jul 2017 11:53:34: #1 Redundant rate of treatment: 0.50 INFO @ Fri, 28 Jul 2017 11:53:34: #1 finished! INFO @ Fri, 28 Jul 2017 11:53:34: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:53:34: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:53:34: #1 tags after filtering in treatment: 5912228 INFO @ Fri, 28 Jul 2017 11:53:34: #1 Redundant rate of treatment: 0.50 INFO @ Fri, 28 Jul 2017 11:53:34: #1 finished! INFO @ Fri, 28 Jul 2017 11:53:34: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:53:34: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:53:34: #1 tags after filtering in treatment: 5912228 INFO @ Fri, 28 Jul 2017 11:53:34: #1 Redundant rate of treatment: 0.50 INFO @ Fri, 28 Jul 2017 11:53:34: #1 finished! INFO @ Fri, 28 Jul 2017 11:53:34: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:53:34: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:53:34: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 11:53:34: 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, 28 Jul 2017 11:53:34: Process for pairing-model is terminated! cat: SRX2961323.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Fri, 28 Jul 2017 11:53:34: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 11:53:34: 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, 28 Jul 2017 11:53:34: Process for pairing-model is terminated! INFO @ Fri, 28 Jul 2017 11:53:34: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 11:53:34: 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, 28 Jul 2017 11:53:34: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) cat: SRX2961323.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません rm: cannot remove `SRX2961323.05_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 `SRX2961323.05_*.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 `SRX2961323.05_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 cat: SRX2961323.10_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 `SRX2961323.20_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 `SRX2961323.20_*.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 `SRX2961323.20_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): 0 millis CompletedMACS2peakCalling needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2961323.10_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 `SRX2961323.10_*.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 `SRX2961323.10_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。