Job ID = 9160021 sra ファイルのダウンロード中... Completed: 1612629K bytes transferred in 18 seconds (716844K 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 16067796 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2402746/SRR5085191.sra Written 16067796 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: 00:15:52 16067796 reads; of these: 16067796 (100.00%) were paired; of these: 666455 (4.15%) aligned concordantly 0 times 12062132 (75.07%) aligned concordantly exactly 1 time 3339209 (20.78%) aligned concordantly >1 times ---- 666455 pairs aligned concordantly 0 times; of these: 75628 (11.35%) aligned discordantly 1 time ---- 590827 pairs aligned 0 times concordantly or discordantly; of these: 1181654 mates make up the pairs; of these: 1024756 (86.72%) aligned 0 times 86021 (7.28%) aligned exactly 1 time 70877 (6.00%) aligned >1 times 96.81% overall alignment rate Time searching: 00:15:52 Overall time: 00:15:52 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 16 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] 1895792 / 15443999 = 0.1228 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 02:08:33: # Command line: callpeak -t SRX2402746.bam -f BAM -g 12100000 -n SRX2402746.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2402746.05 # format = BAM # ChIP-seq file = ['SRX2402746.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 02:08:33: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:08:33: # Command line: callpeak -t SRX2402746.bam -f BAM -g 12100000 -n SRX2402746.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2402746.10 # format = BAM # ChIP-seq file = ['SRX2402746.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 02:08:33: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:08:33: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:08:33: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:08:33: # Command line: callpeak -t SRX2402746.bam -f BAM -g 12100000 -n SRX2402746.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2402746.20 # format = BAM # ChIP-seq file = ['SRX2402746.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 02:08:33: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:08:33: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:08:40: 1000000 INFO @ Wed, 28 Jun 2017 02:08:40: 1000000 INFO @ Wed, 28 Jun 2017 02:08:40: 1000000 INFO @ Wed, 28 Jun 2017 02:08:46: 2000000 INFO @ Wed, 28 Jun 2017 02:08:46: 2000000 INFO @ Wed, 28 Jun 2017 02:08:47: 2000000 INFO @ Wed, 28 Jun 2017 02:08:52: 3000000 INFO @ Wed, 28 Jun 2017 02:08:53: 3000000 INFO @ Wed, 28 Jun 2017 02:08:53: 3000000 INFO @ Wed, 28 Jun 2017 02:08:59: 4000000 INFO @ Wed, 28 Jun 2017 02:08:59: 4000000 INFO @ Wed, 28 Jun 2017 02:09:00: 4000000 INFO @ Wed, 28 Jun 2017 02:09:05: 5000000 INFO @ Wed, 28 Jun 2017 02:09:05: 5000000 INFO @ Wed, 28 Jun 2017 02:09:07: 5000000 INFO @ Wed, 28 Jun 2017 02:09:12: 6000000 INFO @ Wed, 28 Jun 2017 02:09:12: 6000000 INFO @ Wed, 28 Jun 2017 02:09:14: 6000000 INFO @ Wed, 28 Jun 2017 02:09:18: 7000000 INFO @ Wed, 28 Jun 2017 02:09:18: 7000000 INFO @ Wed, 28 Jun 2017 02:09:21: 7000000 INFO @ Wed, 28 Jun 2017 02:09:25: 8000000 INFO @ Wed, 28 Jun 2017 02:09:25: 8000000 INFO @ Wed, 28 Jun 2017 02:09:28: 8000000 INFO @ Wed, 28 Jun 2017 02:09:31: 9000000 INFO @ Wed, 28 Jun 2017 02:09:32: 9000000 INFO @ Wed, 28 Jun 2017 02:09:35: 9000000 INFO @ Wed, 28 Jun 2017 02:09:37: 10000000 INFO @ Wed, 28 Jun 2017 02:09:38: 10000000 INFO @ Wed, 28 Jun 2017 02:09:42: 10000000 INFO @ Wed, 28 Jun 2017 02:09:44: 11000000 INFO @ Wed, 28 Jun 2017 02:09:45: 11000000 INFO @ Wed, 28 Jun 2017 02:09:49: 11000000 INFO @ Wed, 28 Jun 2017 02:09:50: 12000000 INFO @ Wed, 28 Jun 2017 02:09:52: 12000000 INFO @ Wed, 28 Jun 2017 02:09:56: 12000000 INFO @ Wed, 28 Jun 2017 02:09:56: 13000000 INFO @ Wed, 28 Jun 2017 02:09:58: 13000000 INFO @ Wed, 28 Jun 2017 02:10:03: 14000000 INFO @ Wed, 28 Jun 2017 02:10:03: 13000000 INFO @ Wed, 28 Jun 2017 02:10:05: 14000000 INFO @ Wed, 28 Jun 2017 02:10:09: 15000000 INFO @ Wed, 28 Jun 2017 02:10:10: 14000000 INFO @ Wed, 28 Jun 2017 02:10:11: 15000000 INFO @ Wed, 28 Jun 2017 02:10:15: 16000000 INFO @ Wed, 28 Jun 2017 02:10:17: 15000000 INFO @ Wed, 28 Jun 2017 02:10:18: 16000000 INFO @ Wed, 28 Jun 2017 02:10:21: 17000000 INFO @ Wed, 28 Jun 2017 02:10:24: 16000000 INFO @ Wed, 28 Jun 2017 02:10:24: 17000000 INFO @ Wed, 28 Jun 2017 02:10:27: 18000000 INFO @ Wed, 28 Jun 2017 02:10:31: 18000000 INFO @ Wed, 28 Jun 2017 02:10:31: 17000000 INFO @ Wed, 28 Jun 2017 02:10:34: 19000000 INFO @ Wed, 28 Jun 2017 02:10:38: 19000000 INFO @ Wed, 28 Jun 2017 02:10:38: 18000000 INFO @ Wed, 28 Jun 2017 02:10:40: 20000000 INFO @ Wed, 28 Jun 2017 02:10:44: 20000000 INFO @ Wed, 28 Jun 2017 02:10:45: 19000000 INFO @ Wed, 28 Jun 2017 02:10:46: 21000000 INFO @ Wed, 28 Jun 2017 02:10:51: 21000000 INFO @ Wed, 28 Jun 2017 02:10:52: 22000000 INFO @ Wed, 28 Jun 2017 02:10:52: 20000000 INFO @ Wed, 28 Jun 2017 02:10:58: 22000000 INFO @ Wed, 28 Jun 2017 02:10:59: 23000000 INFO @ Wed, 28 Jun 2017 02:11:00: 21000000 INFO @ Wed, 28 Jun 2017 02:11:04: 23000000 INFO @ Wed, 28 Jun 2017 02:11:05: 24000000 INFO @ Wed, 28 Jun 2017 02:11:07: 22000000 INFO @ Wed, 28 Jun 2017 02:11:11: 24000000 INFO @ Wed, 28 Jun 2017 02:11:11: 25000000 INFO @ Wed, 28 Jun 2017 02:11:14: 23000000 INFO @ Wed, 28 Jun 2017 02:11:17: 26000000 INFO @ Wed, 28 Jun 2017 02:11:17: 25000000 INFO @ Wed, 28 Jun 2017 02:11:21: 24000000 INFO @ Wed, 28 Jun 2017 02:11:24: 27000000 INFO @ Wed, 28 Jun 2017 02:11:24: 26000000 INFO @ Wed, 28 Jun 2017 02:11:26: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 02:11:26: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 02:11:26: #1 total tags in treatment: 13507950 INFO @ Wed, 28 Jun 2017 02:11:26: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:11:26: #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 02:11:26: #1 tags after filtering in treatment: 9139722 INFO @ Wed, 28 Jun 2017 02:11:26: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 28 Jun 2017 02:11:26: #1 finished! INFO @ Wed, 28 Jun 2017 02:11:26: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:11:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:11:27: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:11:27: 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 02:11:27: Process for pairing-model is terminated! cat: SRX2402746.20_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 `SRX2402746.20_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 `SRX2402746.20_*.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 `SRX2402746.20_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 @ Wed, 28 Jun 2017 02:11:28: 25000000 INFO @ Wed, 28 Jun 2017 02:11:31: 27000000 INFO @ Wed, 28 Jun 2017 02:11:33: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 02:11:33: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 02:11:33: #1 total tags in treatment: 13507950 INFO @ Wed, 28 Jun 2017 02:11:33: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:11:33: #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 02:11:33: #1 tags after filtering in treatment: 9139722 INFO @ Wed, 28 Jun 2017 02:11:33: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 28 Jun 2017 02:11:33: #1 finished! INFO @ Wed, 28 Jun 2017 02:11:33: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:11:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:11:34: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:11:34: 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 @ Wed, 28 Jun 2017 02:11:34: Process for pairing-model is terminated! cat: SRX2402746.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2402746.10_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 `SRX2402746.10_*.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 `SRX2402746.10_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 02:11:35: 26000000 INFO @ Wed, 28 Jun 2017 02:11:41: 27000000 INFO @ Wed, 28 Jun 2017 02:11:43: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 02:11:43: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 02:11:43: #1 total tags in treatment: 13507950 INFO @ Wed, 28 Jun 2017 02:11:43: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:11:43: #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 02:11:44: #1 tags after filtering in treatment: 9139722 INFO @ Wed, 28 Jun 2017 02:11:44: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 28 Jun 2017 02:11:44: #1 finished! INFO @ Wed, 28 Jun 2017 02:11:44: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:11:44: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:11:44: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:11:44: 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 02:11:44: Process for pairing-model is terminated! cat: SRX2402746.05_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 `SRX2402746.05_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 `SRX2402746.05_*.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 `SRX2402746.05_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。