Job ID = 9163654 sra ファイルのダウンロード中... Completed: 1156625K bytes transferred in 13 seconds (689039K 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 11708120 spots for /home/okishinya/chipatlas/results/sacCer3/SRX997170/SRR1976202.sra Written 11708120 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: 00:09:24 11708120 reads; of these: 11708120 (100.00%) were paired; of these: 1849927 (15.80%) aligned concordantly 0 times 9242867 (78.94%) aligned concordantly exactly 1 time 615326 (5.26%) aligned concordantly >1 times ---- 1849927 pairs aligned concordantly 0 times; of these: 296552 (16.03%) aligned discordantly 1 time ---- 1553375 pairs aligned 0 times concordantly or discordantly; of these: 3106750 mates make up the pairs; of these: 2820452 (90.78%) aligned 0 times 217151 (6.99%) aligned exactly 1 time 69147 (2.23%) aligned >1 times 87.96% overall alignment rate Time searching: 00:09:24 Overall time: 00:09:24 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] 1579748 / 10107992 = 0.1563 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 11:29:44: # Command line: callpeak -t SRX997170.bam -f BAM -g 12100000 -n SRX997170.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX997170.10 # format = BAM # ChIP-seq file = ['SRX997170.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 11:29:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:29:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:29:44: # Command line: callpeak -t SRX997170.bam -f BAM -g 12100000 -n SRX997170.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX997170.05 # format = BAM # ChIP-seq file = ['SRX997170.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 11:29:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:29:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:29:44: # Command line: callpeak -t SRX997170.bam -f BAM -g 12100000 -n SRX997170.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX997170.20 # format = BAM # ChIP-seq file = ['SRX997170.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 11:29:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:29:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:29:50: 1000000 INFO @ Wed, 28 Jun 2017 11:29:50: 1000000 INFO @ Wed, 28 Jun 2017 11:29:50: 1000000 INFO @ Wed, 28 Jun 2017 11:29:56: 2000000 INFO @ Wed, 28 Jun 2017 11:29:56: 2000000 INFO @ Wed, 28 Jun 2017 11:29:56: 2000000 INFO @ Wed, 28 Jun 2017 11:30:03: 3000000 INFO @ Wed, 28 Jun 2017 11:30:03: 3000000 INFO @ Wed, 28 Jun 2017 11:30:03: 3000000 INFO @ Wed, 28 Jun 2017 11:30:09: 4000000 INFO @ Wed, 28 Jun 2017 11:30:09: 4000000 INFO @ Wed, 28 Jun 2017 11:30:09: 4000000 INFO @ Wed, 28 Jun 2017 11:30:15: 5000000 INFO @ Wed, 28 Jun 2017 11:30:15: 5000000 INFO @ Wed, 28 Jun 2017 11:30:15: 5000000 INFO @ Wed, 28 Jun 2017 11:30:21: 6000000 INFO @ Wed, 28 Jun 2017 11:30:21: 6000000 INFO @ Wed, 28 Jun 2017 11:30:22: 6000000 INFO @ Wed, 28 Jun 2017 11:30:27: 7000000 INFO @ Wed, 28 Jun 2017 11:30:28: 7000000 INFO @ Wed, 28 Jun 2017 11:30:28: 7000000 INFO @ Wed, 28 Jun 2017 11:30:33: 8000000 INFO @ Wed, 28 Jun 2017 11:30:34: 8000000 INFO @ Wed, 28 Jun 2017 11:30:34: 8000000 INFO @ Wed, 28 Jun 2017 11:30:39: 9000000 INFO @ Wed, 28 Jun 2017 11:30:40: 9000000 INFO @ Wed, 28 Jun 2017 11:30:40: 9000000 INFO @ Wed, 28 Jun 2017 11:30:46: 10000000 INFO @ Wed, 28 Jun 2017 11:30:46: 10000000 INFO @ Wed, 28 Jun 2017 11:30:46: 10000000 INFO @ Wed, 28 Jun 2017 11:30:52: 11000000 INFO @ Wed, 28 Jun 2017 11:30:53: 11000000 INFO @ Wed, 28 Jun 2017 11:30:53: 11000000 INFO @ Wed, 28 Jun 2017 11:30:58: 12000000 INFO @ Wed, 28 Jun 2017 11:30:59: 12000000 INFO @ Wed, 28 Jun 2017 11:30:59: 12000000 INFO @ Wed, 28 Jun 2017 11:31:04: 13000000 INFO @ Wed, 28 Jun 2017 11:31:05: 13000000 INFO @ Wed, 28 Jun 2017 11:31:05: 13000000 INFO @ Wed, 28 Jun 2017 11:31:10: 14000000 INFO @ Wed, 28 Jun 2017 11:31:11: 14000000 INFO @ Wed, 28 Jun 2017 11:31:12: 14000000 INFO @ Wed, 28 Jun 2017 11:31:16: 15000000 INFO @ Wed, 28 Jun 2017 11:31:18: 15000000 INFO @ Wed, 28 Jun 2017 11:31:18: 15000000 INFO @ Wed, 28 Jun 2017 11:31:22: 16000000 INFO @ Wed, 28 Jun 2017 11:31:24: 16000000 INFO @ Wed, 28 Jun 2017 11:31:24: 16000000 INFO @ Wed, 28 Jun 2017 11:31:28: 17000000 INFO @ Wed, 28 Jun 2017 11:31:30: 17000000 INFO @ Wed, 28 Jun 2017 11:31:30: 17000000 INFO @ Wed, 28 Jun 2017 11:31:31: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 11:31:31: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 11:31:31: #1 total tags in treatment: 8291299 INFO @ Wed, 28 Jun 2017 11:31:31: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:31:31: #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 11:31:31: #1 tags after filtering in treatment: 4069546 INFO @ Wed, 28 Jun 2017 11:31:31: #1 Redundant rate of treatment: 0.51 INFO @ Wed, 28 Jun 2017 11:31:31: #1 finished! INFO @ Wed, 28 Jun 2017 11:31:31: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:31:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:31:31: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:31:31: 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 11:31:31: Process for pairing-model is terminated! cat: SRX997170.05_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 `SRX997170.05_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 `SRX997170.05_*.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 `SRX997170.05_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 11:31:33: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 11:31:33: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 11:31:33: #1 total tags in treatment: 8291299 INFO @ Wed, 28 Jun 2017 11:31:33: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:31:33: #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 11:31:33: #1 tags after filtering in treatment: 4069546 INFO @ Wed, 28 Jun 2017 11:31:33: #1 Redundant rate of treatment: 0.51 INFO @ Wed, 28 Jun 2017 11:31:33: #1 finished! INFO @ Wed, 28 Jun 2017 11:31:33: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:31:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:31:33: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 11:31:33: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 11:31:33: #1 total tags in treatment: 8291299 INFO @ Wed, 28 Jun 2017 11:31:33: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:31:33: #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 11:31:33: #1 tags after filtering in treatment: 4069546 INFO @ Wed, 28 Jun 2017 11:31:33: #1 Redundant rate of treatment: 0.51 INFO @ Wed, 28 Jun 2017 11:31:33: #1 finished! INFO @ Wed, 28 Jun 2017 11:31:33: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:31:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:31:33: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:31:33: 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 11:31:33: Process for pairing-model is terminated! cat: SRX997170.20_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 `SRX997170.20_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 `SRX997170.20_*.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 `SRX997170.20_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 11:31:34: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:31:34: 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 11:31:34: Process for pairing-model is terminated! cat: SRX997170.10_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 `SRX997170.10_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 `SRX997170.10_*.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 `SRX997170.10_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。