Job ID = 9161796 sra ファイルのダウンロード中... Completed: 449955K bytes transferred in 8 seconds (447563K 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 10244537 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1044182/SRR2045663.sra Written 10244537 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: 00:08:49 10244537 reads; of these: 10244537 (100.00%) were paired; of these: 1061915 (10.37%) aligned concordantly 0 times 7491627 (73.13%) aligned concordantly exactly 1 time 1690995 (16.51%) aligned concordantly >1 times ---- 1061915 pairs aligned concordantly 0 times; of these: 519807 (48.95%) aligned discordantly 1 time ---- 542108 pairs aligned 0 times concordantly or discordantly; of these: 1084216 mates make up the pairs; of these: 421179 (38.85%) aligned 0 times 301481 (27.81%) aligned exactly 1 time 361556 (33.35%) aligned >1 times 97.94% overall alignment rate Time searching: 00:08:49 Overall time: 00:08:50 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] 485153 / 9287493 = 0.0522 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 04:49:33: # Command line: callpeak -t SRX1044182.bam -f BAM -g 12100000 -n SRX1044182.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1044182.20 # format = BAM # ChIP-seq file = ['SRX1044182.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 04:49:33: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:49:33: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:49:33: # Command line: callpeak -t SRX1044182.bam -f BAM -g 12100000 -n SRX1044182.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1044182.05 # format = BAM # ChIP-seq file = ['SRX1044182.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 04:49:33: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:49:33: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:49:33: # Command line: callpeak -t SRX1044182.bam -f BAM -g 12100000 -n SRX1044182.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1044182.10 # format = BAM # ChIP-seq file = ['SRX1044182.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 04:49:33: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:49:33: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:49:40: 1000000 INFO @ Wed, 28 Jun 2017 04:49:40: 1000000 INFO @ Wed, 28 Jun 2017 04:49:40: 1000000 INFO @ Wed, 28 Jun 2017 04:49:46: 2000000 INFO @ Wed, 28 Jun 2017 04:49:46: 2000000 INFO @ Wed, 28 Jun 2017 04:49:46: 2000000 INFO @ Wed, 28 Jun 2017 04:49:52: 3000000 INFO @ Wed, 28 Jun 2017 04:49:52: 3000000 INFO @ Wed, 28 Jun 2017 04:49:52: 3000000 INFO @ Wed, 28 Jun 2017 04:49:58: 4000000 INFO @ Wed, 28 Jun 2017 04:49:59: 4000000 INFO @ Wed, 28 Jun 2017 04:49:59: 4000000 INFO @ Wed, 28 Jun 2017 04:50:05: 5000000 INFO @ Wed, 28 Jun 2017 04:50:05: 5000000 INFO @ Wed, 28 Jun 2017 04:50:05: 5000000 INFO @ Wed, 28 Jun 2017 04:50:11: 6000000 INFO @ Wed, 28 Jun 2017 04:50:11: 6000000 INFO @ Wed, 28 Jun 2017 04:50:11: 6000000 INFO @ Wed, 28 Jun 2017 04:50:17: 7000000 INFO @ Wed, 28 Jun 2017 04:50:18: 7000000 INFO @ Wed, 28 Jun 2017 04:50:18: 7000000 INFO @ Wed, 28 Jun 2017 04:50:24: 8000000 INFO @ Wed, 28 Jun 2017 04:50:24: 8000000 INFO @ Wed, 28 Jun 2017 04:50:24: 8000000 INFO @ Wed, 28 Jun 2017 04:50:30: 9000000 INFO @ Wed, 28 Jun 2017 04:50:31: 9000000 INFO @ Wed, 28 Jun 2017 04:50:31: 9000000 INFO @ Wed, 28 Jun 2017 04:50:37: 10000000 INFO @ Wed, 28 Jun 2017 04:50:37: 10000000 INFO @ Wed, 28 Jun 2017 04:50:38: 10000000 INFO @ Wed, 28 Jun 2017 04:50:43: 11000000 INFO @ Wed, 28 Jun 2017 04:50:44: 11000000 INFO @ Wed, 28 Jun 2017 04:50:44: 11000000 INFO @ Wed, 28 Jun 2017 04:50:50: 12000000 INFO @ Wed, 28 Jun 2017 04:50:51: 12000000 INFO @ Wed, 28 Jun 2017 04:50:51: 12000000 INFO @ Wed, 28 Jun 2017 04:50:56: 13000000 INFO @ Wed, 28 Jun 2017 04:50:58: 13000000 INFO @ Wed, 28 Jun 2017 04:50:58: 13000000 INFO @ Wed, 28 Jun 2017 04:51:03: 14000000 INFO @ Wed, 28 Jun 2017 04:51:05: 14000000 INFO @ Wed, 28 Jun 2017 04:51:05: 14000000 INFO @ Wed, 28 Jun 2017 04:51:10: 15000000 INFO @ Wed, 28 Jun 2017 04:51:12: 15000000 INFO @ Wed, 28 Jun 2017 04:51:12: 15000000 INFO @ Wed, 28 Jun 2017 04:51:17: 16000000 INFO @ Wed, 28 Jun 2017 04:51:19: 16000000 INFO @ Wed, 28 Jun 2017 04:51:19: 16000000 INFO @ Wed, 28 Jun 2017 04:51:24: 17000000 INFO @ Wed, 28 Jun 2017 04:51:26: 17000000 INFO @ Wed, 28 Jun 2017 04:51:26: 17000000 INFO @ Wed, 28 Jun 2017 04:51:31: 18000000 INFO @ Wed, 28 Jun 2017 04:51:33: 18000000 INFO @ Wed, 28 Jun 2017 04:51:33: 18000000 INFO @ Wed, 28 Jun 2017 04:51:38: 19000000 INFO @ Wed, 28 Jun 2017 04:51:38: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:51:38: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:51:38: #1 total tags in treatment: 8700236 INFO @ Wed, 28 Jun 2017 04:51:38: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:51:38: #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 04:51:39: #1 tags after filtering in treatment: 6155671 INFO @ Wed, 28 Jun 2017 04:51:39: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 28 Jun 2017 04:51:39: #1 finished! INFO @ Wed, 28 Jun 2017 04:51:39: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:51:39: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:51:39: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:51:39: 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 04:51:39: Process for pairing-model is terminated! cat: SRX1044182.05_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 `SRX1044182.05_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 `SRX1044182.05_*.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 `SRX1044182.05_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 04:51:39: 19000000 INFO @ Wed, 28 Jun 2017 04:51:40: 19000000 INFO @ Wed, 28 Jun 2017 04:51:40: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:51:40: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:51:40: #1 total tags in treatment: 8700236 INFO @ Wed, 28 Jun 2017 04:51:40: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:51:40: #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 04:51:40: #1 tags after filtering in treatment: 6155671 INFO @ Wed, 28 Jun 2017 04:51:40: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 28 Jun 2017 04:51:40: #1 finished! INFO @ Wed, 28 Jun 2017 04:51:40: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:51:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:51:40: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:51:40: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:51:40: #1 total tags in treatment: 8700236 INFO @ Wed, 28 Jun 2017 04:51:40: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:51:40: #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 04:51:40: #1 tags after filtering in treatment: 6155671 INFO @ Wed, 28 Jun 2017 04:51:40: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 28 Jun 2017 04:51:40: #1 finished! INFO @ Wed, 28 Jun 2017 04:51:40: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:51:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:51:40: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:51:40: 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 04:51:40: Process for pairing-model is terminated! cat: SRX1044182.10_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 `SRX1044182.10_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 `SRX1044182.10_*.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 `SRX1044182.10_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 04:51:41: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:51:41: 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 04:51:41: Process for pairing-model is terminated! cat: SRX1044182.20_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 `SRX1044182.20_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 `SRX1044182.20_*.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 `SRX1044182.20_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。