Job ID = 9162412 sra ファイルのダウンロード中... Completed: 919782K bytes transferred in 14 seconds (532633K bits/sec), in 1 file, 2 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 10767679 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2457692/SRR5138807.sra Written 10767679 spots total 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: 00:13:24 10767679 reads; of these: 10767679 (100.00%) were paired; of these: 821256 (7.63%) aligned concordantly 0 times 9273219 (86.12%) aligned concordantly exactly 1 time 673204 (6.25%) aligned concordantly >1 times ---- 821256 pairs aligned concordantly 0 times; of these: 467057 (56.87%) aligned discordantly 1 time ---- 354199 pairs aligned 0 times concordantly or discordantly; of these: 708398 mates make up the pairs; of these: 532122 (75.12%) aligned 0 times 103167 (14.56%) aligned exactly 1 time 73109 (10.32%) aligned >1 times 97.53% overall alignment rate Time searching: 00:13:24 Overall time: 00:13:24 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] 1216093 / 10339273 = 0.1176 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 @ Wed, 28 Jun 2017 08:04:02: # Command line: callpeak -t SRX2457692.bam -f BAM -g 12100000 -n SRX2457692.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2457692.05 # format = BAM # ChIP-seq file = ['SRX2457692.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 @ Wed, 28 Jun 2017 08:04:02: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:04:02: # Command line: callpeak -t SRX2457692.bam -f BAM -g 12100000 -n SRX2457692.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2457692.10 # format = BAM # ChIP-seq file = ['SRX2457692.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 @ Wed, 28 Jun 2017 08:04:02: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:04:02: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:04:02: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:04:02: # Command line: callpeak -t SRX2457692.bam -f BAM -g 12100000 -n SRX2457692.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2457692.20 # format = BAM # ChIP-seq file = ['SRX2457692.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 @ Wed, 28 Jun 2017 08:04:02: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:04:02: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:04:11: 1000000 INFO @ Wed, 28 Jun 2017 08:04:11: 1000000 INFO @ Wed, 28 Jun 2017 08:04:12: 1000000 INFO @ Wed, 28 Jun 2017 08:04:21: 2000000 INFO @ Wed, 28 Jun 2017 08:04:21: 2000000 INFO @ Wed, 28 Jun 2017 08:04:22: 2000000 INFO @ Wed, 28 Jun 2017 08:04:30: 3000000 INFO @ Wed, 28 Jun 2017 08:04:30: 3000000 INFO @ Wed, 28 Jun 2017 08:04:32: 3000000 INFO @ Wed, 28 Jun 2017 08:04:39: 4000000 INFO @ Wed, 28 Jun 2017 08:04:39: 4000000 INFO @ Wed, 28 Jun 2017 08:04:41: 4000000 INFO @ Wed, 28 Jun 2017 08:04:47: 5000000 INFO @ Wed, 28 Jun 2017 08:04:47: 5000000 INFO @ Wed, 28 Jun 2017 08:04:50: 5000000 INFO @ Wed, 28 Jun 2017 08:04:55: 6000000 INFO @ Wed, 28 Jun 2017 08:04:55: 6000000 INFO @ Wed, 28 Jun 2017 08:04:58: 6000000 INFO @ Wed, 28 Jun 2017 08:05:03: 7000000 INFO @ Wed, 28 Jun 2017 08:05:03: 7000000 INFO @ Wed, 28 Jun 2017 08:05:06: 7000000 INFO @ Wed, 28 Jun 2017 08:05:10: 8000000 INFO @ Wed, 28 Jun 2017 08:05:10: 8000000 INFO @ Wed, 28 Jun 2017 08:05:13: 8000000 INFO @ Wed, 28 Jun 2017 08:05:16: 9000000 INFO @ Wed, 28 Jun 2017 08:05:16: 9000000 INFO @ Wed, 28 Jun 2017 08:05:20: 9000000 INFO @ Wed, 28 Jun 2017 08:05:23: 10000000 INFO @ Wed, 28 Jun 2017 08:05:23: 10000000 INFO @ Wed, 28 Jun 2017 08:05:27: 10000000 INFO @ Wed, 28 Jun 2017 08:05:30: 11000000 INFO @ Wed, 28 Jun 2017 08:05:30: 11000000 INFO @ Wed, 28 Jun 2017 08:05:36: 11000000 INFO @ Wed, 28 Jun 2017 08:05:37: 12000000 INFO @ Wed, 28 Jun 2017 08:05:37: 12000000 INFO @ Wed, 28 Jun 2017 08:05:44: 12000000 INFO @ Wed, 28 Jun 2017 08:05:44: 13000000 INFO @ Wed, 28 Jun 2017 08:05:45: 13000000 INFO @ Wed, 28 Jun 2017 08:05:52: 14000000 INFO @ Wed, 28 Jun 2017 08:05:52: 14000000 INFO @ Wed, 28 Jun 2017 08:05:53: 13000000 INFO @ Wed, 28 Jun 2017 08:05:59: 15000000 INFO @ Wed, 28 Jun 2017 08:05:59: 15000000 INFO @ Wed, 28 Jun 2017 08:06:01: 14000000 INFO @ Wed, 28 Jun 2017 08:06:06: 16000000 INFO @ Wed, 28 Jun 2017 08:06:06: 16000000 INFO @ Wed, 28 Jun 2017 08:06:11: 15000000 INFO @ Wed, 28 Jun 2017 08:06:14: 17000000 INFO @ Wed, 28 Jun 2017 08:06:15: 17000000 INFO @ Wed, 28 Jun 2017 08:06:21: 16000000 INFO @ Wed, 28 Jun 2017 08:06:23: 18000000 INFO @ Wed, 28 Jun 2017 08:06:23: 18000000 INFO @ Wed, 28 Jun 2017 08:06:28: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:06:28: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:06:28: #1 total tags in treatment: 8755375 INFO @ Wed, 28 Jun 2017 08:06:28: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:06:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 08:06:28: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:06:28: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:06:28: #1 total tags in treatment: 8755375 INFO @ Wed, 28 Jun 2017 08:06:28: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:06:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 08:06:29: #1 tags after filtering in treatment: 5064167 INFO @ Wed, 28 Jun 2017 08:06:29: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 28 Jun 2017 08:06:29: #1 finished! INFO @ Wed, 28 Jun 2017 08:06:29: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:06:29: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:06:29: #1 tags after filtering in treatment: 5064167 INFO @ Wed, 28 Jun 2017 08:06:29: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 28 Jun 2017 08:06:29: #1 finished! INFO @ Wed, 28 Jun 2017 08:06:29: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:06:29: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:06:29: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:06:29: 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 @ Wed, 28 Jun 2017 08:06:29: Process for pairing-model is terminated! cat: SRX2457692.10_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 `SRX2457692.10_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 `SRX2457692.10_*.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 `SRX2457692.10_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 @ Wed, 28 Jun 2017 08:06:29: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:06:29: 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 @ Wed, 28 Jun 2017 08:06:29: Process for pairing-model is terminated! cat: SRX2457692.05_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 `SRX2457692.05_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 `SRX2457692.05_*.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 `SRX2457692.05_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 @ Wed, 28 Jun 2017 08:06:31: 17000000 INFO @ Wed, 28 Jun 2017 08:06:40: 18000000 INFO @ Wed, 28 Jun 2017 08:06:45: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:06:45: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:06:45: #1 total tags in treatment: 8755375 INFO @ Wed, 28 Jun 2017 08:06:45: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:06:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 08:06:45: #1 tags after filtering in treatment: 5064167 INFO @ Wed, 28 Jun 2017 08:06:45: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 28 Jun 2017 08:06:45: #1 finished! INFO @ Wed, 28 Jun 2017 08:06:45: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:06:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:06:46: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:06:46: 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 @ Wed, 28 Jun 2017 08:06:46: Process for pairing-model is terminated! cat: SRX2457692.20_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 `SRX2457692.20_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 `SRX2457692.20_*.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 `SRX2457692.20_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。