Job ID = 9161945 sra ファイルのダウンロード中... Completed: 1229483K bytes transferred in 14 seconds (675881K 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 20223628 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423679/SRR2930968.sra Written 20223628 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: 00:11:32 20223628 reads; of these: 20223628 (100.00%) were paired; of these: 7795361 (38.55%) aligned concordantly 0 times 11028891 (54.53%) aligned concordantly exactly 1 time 1399376 (6.92%) aligned concordantly >1 times ---- 7795361 pairs aligned concordantly 0 times; of these: 59146 (0.76%) aligned discordantly 1 time ---- 7736215 pairs aligned 0 times concordantly or discordantly; of these: 15472430 mates make up the pairs; of these: 15297597 (98.87%) aligned 0 times 133737 (0.86%) aligned exactly 1 time 41096 (0.27%) aligned >1 times 62.18% overall alignment rate Time searching: 00:11:32 Overall time: 00:11:32 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] 999951 / 12472446 = 0.0802 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 05:22:02: # Command line: callpeak -t SRX1423679.bam -f BAM -g 12100000 -n SRX1423679.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423679.10 # format = BAM # ChIP-seq file = ['SRX1423679.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 05:22:02: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:22:02: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:22:02: # Command line: callpeak -t SRX1423679.bam -f BAM -g 12100000 -n SRX1423679.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423679.20 # format = BAM # ChIP-seq file = ['SRX1423679.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 05:22:02: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:22:02: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:22:02: # Command line: callpeak -t SRX1423679.bam -f BAM -g 12100000 -n SRX1423679.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423679.05 # format = BAM # ChIP-seq file = ['SRX1423679.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 05:22:02: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:22:02: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:22:08: 1000000 INFO @ Wed, 28 Jun 2017 05:22:08: 1000000 INFO @ Wed, 28 Jun 2017 05:22:08: 1000000 INFO @ Wed, 28 Jun 2017 05:22:13: 2000000 INFO @ Wed, 28 Jun 2017 05:22:13: 2000000 INFO @ Wed, 28 Jun 2017 05:22:13: 2000000 INFO @ Wed, 28 Jun 2017 05:22:19: 3000000 INFO @ Wed, 28 Jun 2017 05:22:19: 3000000 INFO @ Wed, 28 Jun 2017 05:22:19: 3000000 INFO @ Wed, 28 Jun 2017 05:22:25: 4000000 INFO @ Wed, 28 Jun 2017 05:22:25: 4000000 INFO @ Wed, 28 Jun 2017 05:22:25: 4000000 INFO @ Wed, 28 Jun 2017 05:22:31: 5000000 INFO @ Wed, 28 Jun 2017 05:22:31: 5000000 INFO @ Wed, 28 Jun 2017 05:22:31: 5000000 INFO @ Wed, 28 Jun 2017 05:22:37: 6000000 INFO @ Wed, 28 Jun 2017 05:22:37: 6000000 INFO @ Wed, 28 Jun 2017 05:22:37: 6000000 INFO @ Wed, 28 Jun 2017 05:22:42: 7000000 INFO @ Wed, 28 Jun 2017 05:22:43: 7000000 INFO @ Wed, 28 Jun 2017 05:22:43: 7000000 INFO @ Wed, 28 Jun 2017 05:22:48: 8000000 INFO @ Wed, 28 Jun 2017 05:22:49: 8000000 INFO @ Wed, 28 Jun 2017 05:22:49: 8000000 INFO @ Wed, 28 Jun 2017 05:22:54: 9000000 INFO @ Wed, 28 Jun 2017 05:22:55: 9000000 INFO @ Wed, 28 Jun 2017 05:22:55: 9000000 INFO @ Wed, 28 Jun 2017 05:23:00: 10000000 INFO @ Wed, 28 Jun 2017 05:23:01: 10000000 INFO @ Wed, 28 Jun 2017 05:23:01: 10000000 INFO @ Wed, 28 Jun 2017 05:23:05: 11000000 INFO @ Wed, 28 Jun 2017 05:23:07: 11000000 INFO @ Wed, 28 Jun 2017 05:23:07: 11000000 INFO @ Wed, 28 Jun 2017 05:23:11: 12000000 INFO @ Wed, 28 Jun 2017 05:23:13: 12000000 INFO @ Wed, 28 Jun 2017 05:23:13: 12000000 INFO @ Wed, 28 Jun 2017 05:23:17: 13000000 INFO @ Wed, 28 Jun 2017 05:23:19: 13000000 INFO @ Wed, 28 Jun 2017 05:23:20: 13000000 INFO @ Wed, 28 Jun 2017 05:23:23: 14000000 INFO @ Wed, 28 Jun 2017 05:23:25: 14000000 INFO @ Wed, 28 Jun 2017 05:23:26: 14000000 INFO @ Wed, 28 Jun 2017 05:23:28: 15000000 INFO @ Wed, 28 Jun 2017 05:23:31: 15000000 INFO @ Wed, 28 Jun 2017 05:23:32: 15000000 INFO @ Wed, 28 Jun 2017 05:23:34: 16000000 INFO @ Wed, 28 Jun 2017 05:23:38: 16000000 INFO @ Wed, 28 Jun 2017 05:23:39: 16000000 INFO @ Wed, 28 Jun 2017 05:23:41: 17000000 INFO @ Wed, 28 Jun 2017 05:23:45: 17000000 INFO @ Wed, 28 Jun 2017 05:23:48: 17000000 INFO @ Wed, 28 Jun 2017 05:23:49: 18000000 INFO @ Wed, 28 Jun 2017 05:23:52: 18000000 INFO @ Wed, 28 Jun 2017 05:23:56: 19000000 INFO @ Wed, 28 Jun 2017 05:23:57: 18000000 INFO @ Wed, 28 Jun 2017 05:23:59: 19000000 INFO @ Wed, 28 Jun 2017 05:24:04: 20000000 INFO @ Wed, 28 Jun 2017 05:24:05: 19000000 INFO @ Wed, 28 Jun 2017 05:24:06: 20000000 INFO @ Wed, 28 Jun 2017 05:24:11: 21000000 INFO @ Wed, 28 Jun 2017 05:24:13: 21000000 INFO @ Wed, 28 Jun 2017 05:24:14: 20000000 INFO @ Wed, 28 Jun 2017 05:24:19: 22000000 INFO @ Wed, 28 Jun 2017 05:24:20: 22000000 INFO @ Wed, 28 Jun 2017 05:24:23: 21000000 INFO @ Wed, 28 Jun 2017 05:24:26: 23000000 INFO @ Wed, 28 Jun 2017 05:24:27: 23000000 INFO @ Wed, 28 Jun 2017 05:24:27: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:24:27: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:24:27: #1 total tags in treatment: 11429556 INFO @ Wed, 28 Jun 2017 05:24:27: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:24:27: #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 05:24:28: #1 tags after filtering in treatment: 8477669 INFO @ Wed, 28 Jun 2017 05:24:28: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 28 Jun 2017 05:24:28: #1 finished! INFO @ Wed, 28 Jun 2017 05:24:28: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:24:28: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:24:28: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:24:28: 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 05:24:28: Process for pairing-model is terminated! cat: SRX1423679.05_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 `SRX1423679.05_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 `SRX1423679.05_*.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 `SRX1423679.05_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 05:24:28: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:24:28: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:24:28: #1 total tags in treatment: 11429556 INFO @ Wed, 28 Jun 2017 05:24:28: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:24:28: #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 05:24:29: #1 tags after filtering in treatment: 8477669 INFO @ Wed, 28 Jun 2017 05:24:29: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 28 Jun 2017 05:24:29: #1 finished! INFO @ Wed, 28 Jun 2017 05:24:29: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:24:29: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:24:29: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:24:29: 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 05:24:29: Process for pairing-model is terminated! cat: SRX1423679.10_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 `SRX1423679.10_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 `SRX1423679.10_*.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 `SRX1423679.10_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 05:24:31: 22000000 INFO @ Wed, 28 Jun 2017 05:24:39: 23000000 INFO @ Wed, 28 Jun 2017 05:24:40: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:24:40: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:24:40: #1 total tags in treatment: 11429556 INFO @ Wed, 28 Jun 2017 05:24:40: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:24:40: #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 05:24:40: #1 tags after filtering in treatment: 8477669 INFO @ Wed, 28 Jun 2017 05:24:40: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 28 Jun 2017 05:24:40: #1 finished! INFO @ Wed, 28 Jun 2017 05:24:40: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:24:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:24:41: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:24:41: 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 05:24:41: Process for pairing-model is terminated! cat: SRX1423679.20_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 `SRX1423679.20_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 `SRX1423679.20_*.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 `SRX1423679.20_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。