Job ID = 9385336 sra ファイルのダウンロード中... Completed: 1096473K bytes transferred in 26 seconds (332771K 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 8153690 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2963110/SRR5763441.sra Written 8153690 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: 00:10:00 8153690 reads; of these: 8153690 (100.00%) were paired; of these: 897933 (11.01%) aligned concordantly 0 times 6570722 (80.59%) aligned concordantly exactly 1 time 685035 (8.40%) aligned concordantly >1 times ---- 897933 pairs aligned concordantly 0 times; of these: 164925 (18.37%) aligned discordantly 1 time ---- 733008 pairs aligned 0 times concordantly or discordantly; of these: 1466016 mates make up the pairs; of these: 1291747 (88.11%) aligned 0 times 117701 (8.03%) aligned exactly 1 time 56568 (3.86%) aligned >1 times 92.08% overall alignment rate Time searching: 00:10:00 Overall time: 00:10:00 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] 141121 / 7411498 = 0.0190 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 @ Sun, 06 Aug 2017 01:02:14: # Command line: callpeak -t SRX2963110.bam -f BAM -g 12100000 -n SRX2963110.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2963110.05 # format = BAM # ChIP-seq file = ['SRX2963110.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 @ Sun, 06 Aug 2017 01:02:14: #1 read tag files... INFO @ Sun, 06 Aug 2017 01:02:14: #1 read treatment tags... INFO @ Sun, 06 Aug 2017 01:02:14: # Command line: callpeak -t SRX2963110.bam -f BAM -g 12100000 -n SRX2963110.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2963110.10 # format = BAM # ChIP-seq file = ['SRX2963110.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 @ Sun, 06 Aug 2017 01:02:14: #1 read tag files... INFO @ Sun, 06 Aug 2017 01:02:14: #1 read treatment tags... INFO @ Sun, 06 Aug 2017 01:02:14: # Command line: callpeak -t SRX2963110.bam -f BAM -g 12100000 -n SRX2963110.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2963110.20 # format = BAM # ChIP-seq file = ['SRX2963110.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 @ Sun, 06 Aug 2017 01:02:14: #1 read tag files... INFO @ Sun, 06 Aug 2017 01:02:14: #1 read treatment tags... INFO @ Sun, 06 Aug 2017 01:02:24: 1000000 INFO @ Sun, 06 Aug 2017 01:02:24: 1000000 INFO @ Sun, 06 Aug 2017 01:02:24: 1000000 INFO @ Sun, 06 Aug 2017 01:02:33: 2000000 INFO @ Sun, 06 Aug 2017 01:02:33: 2000000 INFO @ Sun, 06 Aug 2017 01:02:33: 2000000 INFO @ Sun, 06 Aug 2017 01:02:42: 3000000 INFO @ Sun, 06 Aug 2017 01:02:42: 3000000 INFO @ Sun, 06 Aug 2017 01:02:42: 3000000 INFO @ Sun, 06 Aug 2017 01:02:50: 4000000 INFO @ Sun, 06 Aug 2017 01:02:52: 4000000 INFO @ Sun, 06 Aug 2017 01:02:52: 4000000 INFO @ Sun, 06 Aug 2017 01:02:59: 5000000 INFO @ Sun, 06 Aug 2017 01:03:02: 5000000 INFO @ Sun, 06 Aug 2017 01:03:02: 5000000 INFO @ Sun, 06 Aug 2017 01:03:07: 6000000 INFO @ Sun, 06 Aug 2017 01:03:12: 6000000 INFO @ Sun, 06 Aug 2017 01:03:12: 6000000 INFO @ Sun, 06 Aug 2017 01:03:15: 7000000 INFO @ Sun, 06 Aug 2017 01:03:21: 7000000 INFO @ Sun, 06 Aug 2017 01:03:21: 7000000 INFO @ Sun, 06 Aug 2017 01:03:24: 8000000 INFO @ Sun, 06 Aug 2017 01:03:30: 8000000 INFO @ Sun, 06 Aug 2017 01:03:30: 8000000 INFO @ Sun, 06 Aug 2017 01:03:32: 9000000 INFO @ Sun, 06 Aug 2017 01:03:39: 9000000 INFO @ Sun, 06 Aug 2017 01:03:39: 9000000 INFO @ Sun, 06 Aug 2017 01:03:40: 10000000 INFO @ Sun, 06 Aug 2017 01:03:49: 11000000 INFO @ Sun, 06 Aug 2017 01:03:50: 10000000 INFO @ Sun, 06 Aug 2017 01:03:50: 10000000 INFO @ Sun, 06 Aug 2017 01:03:58: 12000000 INFO @ Sun, 06 Aug 2017 01:04:00: 11000000 INFO @ Sun, 06 Aug 2017 01:04:00: 11000000 INFO @ Sun, 06 Aug 2017 01:04:08: 13000000 INFO @ Sun, 06 Aug 2017 01:04:10: 12000000 INFO @ Sun, 06 Aug 2017 01:04:10: 12000000 INFO @ Sun, 06 Aug 2017 01:04:18: 14000000 INFO @ Sun, 06 Aug 2017 01:04:20: 13000000 INFO @ Sun, 06 Aug 2017 01:04:20: 13000000 INFO @ Sun, 06 Aug 2017 01:04:25: #1 tag size is determined as 101 bps INFO @ Sun, 06 Aug 2017 01:04:25: #1 tag size = 101 INFO @ Sun, 06 Aug 2017 01:04:25: #1 total tags in treatment: 7116421 INFO @ Sun, 06 Aug 2017 01:04:25: #1 user defined the maximum tags... INFO @ Sun, 06 Aug 2017 01:04:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 06 Aug 2017 01:04:25: #1 tags after filtering in treatment: 5876207 INFO @ Sun, 06 Aug 2017 01:04:25: #1 Redundant rate of treatment: 0.17 INFO @ Sun, 06 Aug 2017 01:04:25: #1 finished! INFO @ Sun, 06 Aug 2017 01:04:25: #2 Build Peak Model... INFO @ Sun, 06 Aug 2017 01:04:25: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 06 Aug 2017 01:04:25: #2 number of paired peaks: 0 WARNING @ Sun, 06 Aug 2017 01:04:25: 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 @ Sun, 06 Aug 2017 01:04:25: Process for pairing-model is terminated! cat: SRX2963110.05_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 `SRX2963110.05_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 `SRX2963110.05_*.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 `SRX2963110.05_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 @ Sun, 06 Aug 2017 01:04:29: 14000000 INFO @ Sun, 06 Aug 2017 01:04:29: 14000000 INFO @ Sun, 06 Aug 2017 01:04:37: #1 tag size is determined as 101 bps INFO @ Sun, 06 Aug 2017 01:04:37: #1 tag size = 101 INFO @ Sun, 06 Aug 2017 01:04:37: #1 total tags in treatment: 7116421 INFO @ Sun, 06 Aug 2017 01:04:37: #1 user defined the maximum tags... INFO @ Sun, 06 Aug 2017 01:04:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 06 Aug 2017 01:04:37: #1 tag size is determined as 101 bps INFO @ Sun, 06 Aug 2017 01:04:37: #1 tag size = 101 INFO @ Sun, 06 Aug 2017 01:04:37: #1 total tags in treatment: 7116421 INFO @ Sun, 06 Aug 2017 01:04:37: #1 user defined the maximum tags... INFO @ Sun, 06 Aug 2017 01:04:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 06 Aug 2017 01:04:37: #1 tags after filtering in treatment: 5876207 INFO @ Sun, 06 Aug 2017 01:04:37: #1 Redundant rate of treatment: 0.17 INFO @ Sun, 06 Aug 2017 01:04:37: #1 finished! INFO @ Sun, 06 Aug 2017 01:04:37: #2 Build Peak Model... INFO @ Sun, 06 Aug 2017 01:04:37: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 06 Aug 2017 01:04:37: #1 tags after filtering in treatment: 5876207 INFO @ Sun, 06 Aug 2017 01:04:37: #1 Redundant rate of treatment: 0.17 INFO @ Sun, 06 Aug 2017 01:04:37: #1 finished! INFO @ Sun, 06 Aug 2017 01:04:37: #2 Build Peak Model... INFO @ Sun, 06 Aug 2017 01:04:37: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 06 Aug 2017 01:04:37: #2 number of paired peaks: 0 WARNING @ Sun, 06 Aug 2017 01:04:37: 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 @ Sun, 06 Aug 2017 01:04:37: Process for pairing-model is terminated! INFO @ Sun, 06 Aug 2017 01:04:37: #2 number of paired peaks: 0 WARNING @ Sun, 06 Aug 2017 01:04:37: 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 @ Sun, 06 Aug 2017 01:04:37: Process for pairing-model is terminated! cat: SRX2963110.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX2963110.10_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2963110.20_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 `SRX2963110.20_*.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 `SRX2963110.20_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2963110.10_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 `SRX2963110.10_*.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 `SRX2963110.10_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。