Job ID = 9160022 sra ファイルのダウンロード中... Completed: 1493262K bytes transferred in 16 seconds (741930K 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 14906659 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2402747/SRR5085192.sra Written 14906659 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: 00:15:40 14906659 reads; of these: 14906659 (100.00%) were paired; of these: 627615 (4.21%) aligned concordantly 0 times 11174386 (74.96%) aligned concordantly exactly 1 time 3104658 (20.83%) aligned concordantly >1 times ---- 627615 pairs aligned concordantly 0 times; of these: 78557 (12.52%) aligned discordantly 1 time ---- 549058 pairs aligned 0 times concordantly or discordantly; of these: 1098116 mates make up the pairs; of these: 943408 (85.91%) aligned 0 times 82690 (7.53%) aligned exactly 1 time 72018 (6.56%) aligned >1 times 96.84% overall alignment rate Time searching: 00:15:40 Overall time: 00:15:40 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] 1836227 / 14323339 = 0.1282 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 02:07:46: # Command line: callpeak -t SRX2402747.bam -f BAM -g 12100000 -n SRX2402747.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2402747.10 # format = BAM # ChIP-seq file = ['SRX2402747.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 02:07:46: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:07:46: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:07:46: # Command line: callpeak -t SRX2402747.bam -f BAM -g 12100000 -n SRX2402747.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2402747.20 # format = BAM # ChIP-seq file = ['SRX2402747.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 02:07:46: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:07:46: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:07:46: # Command line: callpeak -t SRX2402747.bam -f BAM -g 12100000 -n SRX2402747.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2402747.05 # format = BAM # ChIP-seq file = ['SRX2402747.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 02:07:46: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:07:46: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:07:55: 1000000 INFO @ Wed, 28 Jun 2017 02:07:55: 1000000 INFO @ Wed, 28 Jun 2017 02:07:56: 1000000 INFO @ Wed, 28 Jun 2017 02:08:05: 2000000 INFO @ Wed, 28 Jun 2017 02:08:05: 2000000 INFO @ Wed, 28 Jun 2017 02:08:05: 2000000 INFO @ Wed, 28 Jun 2017 02:08:14: 3000000 INFO @ Wed, 28 Jun 2017 02:08:14: 3000000 INFO @ Wed, 28 Jun 2017 02:08:15: 3000000 INFO @ Wed, 28 Jun 2017 02:08:23: 4000000 INFO @ Wed, 28 Jun 2017 02:08:23: 4000000 INFO @ Wed, 28 Jun 2017 02:08:25: 4000000 INFO @ Wed, 28 Jun 2017 02:08:32: 5000000 INFO @ Wed, 28 Jun 2017 02:08:32: 5000000 INFO @ Wed, 28 Jun 2017 02:08:34: 5000000 INFO @ Wed, 28 Jun 2017 02:08:41: 6000000 INFO @ Wed, 28 Jun 2017 02:08:41: 6000000 INFO @ Wed, 28 Jun 2017 02:08:44: 6000000 INFO @ Wed, 28 Jun 2017 02:08:50: 7000000 INFO @ Wed, 28 Jun 2017 02:08:50: 7000000 INFO @ Wed, 28 Jun 2017 02:08:53: 7000000 INFO @ Wed, 28 Jun 2017 02:08:58: 8000000 INFO @ Wed, 28 Jun 2017 02:08:58: 8000000 INFO @ Wed, 28 Jun 2017 02:09:03: 8000000 INFO @ Wed, 28 Jun 2017 02:09:07: 9000000 INFO @ Wed, 28 Jun 2017 02:09:07: 9000000 INFO @ Wed, 28 Jun 2017 02:09:13: 9000000 INFO @ Wed, 28 Jun 2017 02:09:17: 10000000 INFO @ Wed, 28 Jun 2017 02:09:17: 10000000 INFO @ Wed, 28 Jun 2017 02:09:23: 10000000 INFO @ Wed, 28 Jun 2017 02:09:27: 11000000 INFO @ Wed, 28 Jun 2017 02:09:27: 11000000 INFO @ Wed, 28 Jun 2017 02:09:33: 11000000 INFO @ Wed, 28 Jun 2017 02:09:34: 12000000 INFO @ Wed, 28 Jun 2017 02:09:34: 12000000 INFO @ Wed, 28 Jun 2017 02:09:42: 13000000 INFO @ Wed, 28 Jun 2017 02:09:42: 13000000 INFO @ Wed, 28 Jun 2017 02:09:43: 12000000 INFO @ Wed, 28 Jun 2017 02:09:49: 14000000 INFO @ Wed, 28 Jun 2017 02:09:49: 14000000 INFO @ Wed, 28 Jun 2017 02:09:53: 13000000 INFO @ Wed, 28 Jun 2017 02:09:57: 15000000 INFO @ Wed, 28 Jun 2017 02:09:57: 15000000 INFO @ Wed, 28 Jun 2017 02:10:03: 14000000 INFO @ Wed, 28 Jun 2017 02:10:04: 16000000 INFO @ Wed, 28 Jun 2017 02:10:04: 16000000 INFO @ Wed, 28 Jun 2017 02:10:12: 17000000 INFO @ Wed, 28 Jun 2017 02:10:12: 17000000 INFO @ Wed, 28 Jun 2017 02:10:13: 15000000 INFO @ Wed, 28 Jun 2017 02:10:20: 18000000 INFO @ Wed, 28 Jun 2017 02:10:20: 18000000 INFO @ Wed, 28 Jun 2017 02:10:23: 16000000 INFO @ Wed, 28 Jun 2017 02:10:27: 19000000 INFO @ Wed, 28 Jun 2017 02:10:27: 19000000 INFO @ Wed, 28 Jun 2017 02:10:33: 17000000 INFO @ Wed, 28 Jun 2017 02:10:35: 20000000 INFO @ Wed, 28 Jun 2017 02:10:35: 20000000 INFO @ Wed, 28 Jun 2017 02:10:42: 18000000 INFO @ Wed, 28 Jun 2017 02:10:42: 21000000 INFO @ Wed, 28 Jun 2017 02:10:42: 21000000 INFO @ Wed, 28 Jun 2017 02:10:50: 22000000 INFO @ Wed, 28 Jun 2017 02:10:50: 22000000 INFO @ Wed, 28 Jun 2017 02:10:52: 19000000 INFO @ Wed, 28 Jun 2017 02:10:58: 23000000 INFO @ Wed, 28 Jun 2017 02:10:58: 23000000 INFO @ Wed, 28 Jun 2017 02:11:02: 20000000 INFO @ Wed, 28 Jun 2017 02:11:05: 24000000 INFO @ Wed, 28 Jun 2017 02:11:05: 24000000 INFO @ Wed, 28 Jun 2017 02:11:12: 21000000 INFO @ Wed, 28 Jun 2017 02:11:13: 25000000 INFO @ Wed, 28 Jun 2017 02:11:13: 25000000 INFO @ Wed, 28 Jun 2017 02:11:15: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 02:11:15: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 02:11:15: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 02:11:15: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 02:11:15: #1 total tags in treatment: 12445543 INFO @ Wed, 28 Jun 2017 02:11:15: #1 total tags in treatment: 12445543 INFO @ Wed, 28 Jun 2017 02:11:15: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:11:15: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:11:15: #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 02:11:15: #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 02:11:15: #1 tags after filtering in treatment: 8567794 INFO @ Wed, 28 Jun 2017 02:11:15: #1 tags after filtering in treatment: 8567794 INFO @ Wed, 28 Jun 2017 02:11:15: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 28 Jun 2017 02:11:15: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 28 Jun 2017 02:11:15: #1 finished! INFO @ Wed, 28 Jun 2017 02:11:15: #1 finished! INFO @ Wed, 28 Jun 2017 02:11:15: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:11:15: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:11:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:11:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:11:15: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:11:15: 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 02:11:15: Process for pairing-model is terminated! cat: SRX2402747.10_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 `SRX2402747.10_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 `SRX2402747.10_*.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 `SRX2402747.10_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 02:11:15: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:11:15: 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 02:11:15: Process for pairing-model is terminated! cat: SRX2402747.20_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 `SRX2402747.20_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 `SRX2402747.20_*.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 `SRX2402747.20_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 02:11:22: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 28 Jun 2017 02:11:32: 23000000 INFO @ Wed, 28 Jun 2017 02:11:42: 24000000 BigWig に変換しました。 INFO @ Wed, 28 Jun 2017 02:11:52: 25000000 INFO @ Wed, 28 Jun 2017 02:11:54: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 02:11:54: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 02:11:54: #1 total tags in treatment: 12445543 INFO @ Wed, 28 Jun 2017 02:11:54: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:11:54: #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 02:11:55: #1 tags after filtering in treatment: 8567794 INFO @ Wed, 28 Jun 2017 02:11:55: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 28 Jun 2017 02:11:55: #1 finished! INFO @ Wed, 28 Jun 2017 02:11:55: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:11:55: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:11:55: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:11:55: 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 02:11:55: Process for pairing-model is terminated! cat: SRX2402747.05_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): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2402747.05_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 `SRX2402747.05_*.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 `SRX2402747.05_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