Job ID = 9160002 sra ファイルのダウンロード中... Completed: 916166K bytes transferred in 12 seconds (617444K 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 8814737 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2402727/SRR5085172.sra Written 8814737 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: 00:09:35 8814737 reads; of these: 8814737 (100.00%) were paired; of these: 258822 (2.94%) aligned concordantly 0 times 6119022 (69.42%) aligned concordantly exactly 1 time 2436893 (27.65%) aligned concordantly >1 times ---- 258822 pairs aligned concordantly 0 times; of these: 29967 (11.58%) aligned discordantly 1 time ---- 228855 pairs aligned 0 times concordantly or discordantly; of these: 457710 mates make up the pairs; of these: 382103 (83.48%) aligned 0 times 38533 (8.42%) aligned exactly 1 time 37074 (8.10%) aligned >1 times 97.83% overall alignment rate Time searching: 00:09:35 Overall time: 00:09:35 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 8 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] 797701 / 8578720 = 0.0930 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 01:49:34: # Command line: callpeak -t SRX2402727.bam -f BAM -g 12100000 -n SRX2402727.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2402727.10 # format = BAM # ChIP-seq file = ['SRX2402727.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 01:49:34: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:49:34: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:49:34: # Command line: callpeak -t SRX2402727.bam -f BAM -g 12100000 -n SRX2402727.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2402727.05 # format = BAM # ChIP-seq file = ['SRX2402727.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 01:49:34: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:49:34: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:49:34: # Command line: callpeak -t SRX2402727.bam -f BAM -g 12100000 -n SRX2402727.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2402727.20 # format = BAM # ChIP-seq file = ['SRX2402727.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 01:49:34: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:49:34: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:49:42: 1000000 INFO @ Wed, 28 Jun 2017 01:49:42: 1000000 INFO @ Wed, 28 Jun 2017 01:49:42: 1000000 INFO @ Wed, 28 Jun 2017 01:49:49: 2000000 INFO @ Wed, 28 Jun 2017 01:49:50: 2000000 INFO @ Wed, 28 Jun 2017 01:49:50: 2000000 INFO @ Wed, 28 Jun 2017 01:49:56: 3000000 INFO @ Wed, 28 Jun 2017 01:49:57: 3000000 INFO @ Wed, 28 Jun 2017 01:49:57: 3000000 INFO @ Wed, 28 Jun 2017 01:50:03: 4000000 INFO @ Wed, 28 Jun 2017 01:50:04: 4000000 INFO @ Wed, 28 Jun 2017 01:50:04: 4000000 INFO @ Wed, 28 Jun 2017 01:50:10: 5000000 INFO @ Wed, 28 Jun 2017 01:50:11: 5000000 INFO @ Wed, 28 Jun 2017 01:50:11: 5000000 INFO @ Wed, 28 Jun 2017 01:50:17: 6000000 INFO @ Wed, 28 Jun 2017 01:50:18: 6000000 INFO @ Wed, 28 Jun 2017 01:50:18: 6000000 INFO @ Wed, 28 Jun 2017 01:50:24: 7000000 INFO @ Wed, 28 Jun 2017 01:50:25: 7000000 INFO @ Wed, 28 Jun 2017 01:50:25: 7000000 INFO @ Wed, 28 Jun 2017 01:50:31: 8000000 INFO @ Wed, 28 Jun 2017 01:50:32: 8000000 INFO @ Wed, 28 Jun 2017 01:50:32: 8000000 INFO @ Wed, 28 Jun 2017 01:50:38: 9000000 INFO @ Wed, 28 Jun 2017 01:50:39: 9000000 INFO @ Wed, 28 Jun 2017 01:50:39: 9000000 INFO @ Wed, 28 Jun 2017 01:50:44: 10000000 INFO @ Wed, 28 Jun 2017 01:50:46: 10000000 INFO @ Wed, 28 Jun 2017 01:50:46: 10000000 INFO @ Wed, 28 Jun 2017 01:50:51: 11000000 INFO @ Wed, 28 Jun 2017 01:50:52: 11000000 INFO @ Wed, 28 Jun 2017 01:50:52: 11000000 INFO @ Wed, 28 Jun 2017 01:50:59: 12000000 INFO @ Wed, 28 Jun 2017 01:51:00: 12000000 INFO @ Wed, 28 Jun 2017 01:51:00: 12000000 INFO @ Wed, 28 Jun 2017 01:51:07: 13000000 INFO @ Wed, 28 Jun 2017 01:51:07: 13000000 INFO @ Wed, 28 Jun 2017 01:51:07: 13000000 INFO @ Wed, 28 Jun 2017 01:51:14: 14000000 INFO @ Wed, 28 Jun 2017 01:51:14: 14000000 INFO @ Wed, 28 Jun 2017 01:51:14: 14000000 INFO @ Wed, 28 Jun 2017 01:51:21: 15000000 INFO @ Wed, 28 Jun 2017 01:51:21: 15000000 INFO @ Wed, 28 Jun 2017 01:51:21: 15000000 INFO @ Wed, 28 Jun 2017 01:51:25: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:51:25: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:51:25: #1 total tags in treatment: 7758456 INFO @ Wed, 28 Jun 2017 01:51:25: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:51:25: #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 01:51:25: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:51:25: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:51:25: #1 total tags in treatment: 7758456 INFO @ Wed, 28 Jun 2017 01:51:25: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:51:25: #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 01:51:25: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:51:25: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:51:25: #1 total tags in treatment: 7758456 INFO @ Wed, 28 Jun 2017 01:51:25: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:51:25: #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 01:51:26: #1 tags after filtering in treatment: 5341499 INFO @ Wed, 28 Jun 2017 01:51:26: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 28 Jun 2017 01:51:26: #1 finished! INFO @ Wed, 28 Jun 2017 01:51:26: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:51:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:51:26: #1 tags after filtering in treatment: 5341499 INFO @ Wed, 28 Jun 2017 01:51:26: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 28 Jun 2017 01:51:26: #1 finished! INFO @ Wed, 28 Jun 2017 01:51:26: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:51:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:51:26: #1 tags after filtering in treatment: 5341499 INFO @ Wed, 28 Jun 2017 01:51:26: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 28 Jun 2017 01:51:26: #1 finished! INFO @ Wed, 28 Jun 2017 01:51:26: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:51:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:51:26: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 01:51:26: 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 01:51:26: Process for pairing-model is terminated! cat: SRX2402727.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Wed, 28 Jun 2017 01:51:26: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 01:51:26: 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 01:51:26: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2402727.10_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 `SRX2402727.10_*.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 `SRX2402727.10_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 cat: SRX2402727.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Wed, 28 Jun 2017 01:51:26: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 01:51:26: 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 01:51:26: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2402727.20_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 `SRX2402727.20_*.xls': そのようなファイルやディレクトリはありません cat: SRX2402727.05_peaks.narrowPeakrm: cannot remove `SRX2402727.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません : そのようなファイルやディレクトリはありません CompletedMACS2peakCalling pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2402727.05_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 `SRX2402727.05_*.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 `SRX2402727.05_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。