Job ID = 9161968 sra ファイルのダウンロード中... Completed: 699605K bytes transferred in 8 seconds (651899K 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 12155964 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423700/SRR2930989.sra Written 12155964 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: 00:09:47 12155964 reads; of these: 12155964 (100.00%) were paired; of these: 528496 (4.35%) aligned concordantly 0 times 10525083 (86.58%) aligned concordantly exactly 1 time 1102385 (9.07%) aligned concordantly >1 times ---- 528496 pairs aligned concordantly 0 times; of these: 10722 (2.03%) aligned discordantly 1 time ---- 517774 pairs aligned 0 times concordantly or discordantly; of these: 1035548 mates make up the pairs; of these: 902598 (87.16%) aligned 0 times 110945 (10.71%) aligned exactly 1 time 22005 (2.12%) aligned >1 times 96.29% overall alignment rate Time searching: 00:09:47 Overall time: 00:09:47 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] 3780533 / 11629034 = 0.3251 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 05:23:28: # Command line: callpeak -t SRX1423700.bam -f BAM -g 12100000 -n SRX1423700.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423700.20 # format = BAM # ChIP-seq file = ['SRX1423700.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 05:23:28: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:23:28: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:23:28: # Command line: callpeak -t SRX1423700.bam -f BAM -g 12100000 -n SRX1423700.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423700.10 # format = BAM # ChIP-seq file = ['SRX1423700.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 05:23:28: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:23:28: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:23:28: # Command line: callpeak -t SRX1423700.bam -f BAM -g 12100000 -n SRX1423700.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423700.05 # format = BAM # ChIP-seq file = ['SRX1423700.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 05:23:28: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:23:28: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:23:35: 1000000 INFO @ Wed, 28 Jun 2017 05:23:35: 1000000 INFO @ Wed, 28 Jun 2017 05:23:36: 1000000 INFO @ Wed, 28 Jun 2017 05:23:41: 2000000 INFO @ Wed, 28 Jun 2017 05:23:41: 2000000 INFO @ Wed, 28 Jun 2017 05:23:44: 2000000 INFO @ Wed, 28 Jun 2017 05:23:48: 3000000 INFO @ Wed, 28 Jun 2017 05:23:48: 3000000 INFO @ Wed, 28 Jun 2017 05:23:51: 3000000 INFO @ Wed, 28 Jun 2017 05:23:55: 4000000 INFO @ Wed, 28 Jun 2017 05:23:55: 4000000 INFO @ Wed, 28 Jun 2017 05:23:59: 4000000 INFO @ Wed, 28 Jun 2017 05:24:02: 5000000 INFO @ Wed, 28 Jun 2017 05:24:02: 5000000 INFO @ Wed, 28 Jun 2017 05:24:07: 5000000 INFO @ Wed, 28 Jun 2017 05:24:08: 6000000 INFO @ Wed, 28 Jun 2017 05:24:08: 6000000 INFO @ Wed, 28 Jun 2017 05:24:15: 6000000 INFO @ Wed, 28 Jun 2017 05:24:15: 7000000 INFO @ Wed, 28 Jun 2017 05:24:15: 7000000 INFO @ Wed, 28 Jun 2017 05:24:22: 8000000 INFO @ Wed, 28 Jun 2017 05:24:22: 8000000 INFO @ Wed, 28 Jun 2017 05:24:23: 7000000 INFO @ Wed, 28 Jun 2017 05:24:29: 9000000 INFO @ Wed, 28 Jun 2017 05:24:29: 9000000 INFO @ Wed, 28 Jun 2017 05:24:31: 8000000 INFO @ Wed, 28 Jun 2017 05:24:36: 10000000 INFO @ Wed, 28 Jun 2017 05:24:36: 10000000 INFO @ Wed, 28 Jun 2017 05:24:39: 9000000 INFO @ Wed, 28 Jun 2017 05:24:42: 11000000 INFO @ Wed, 28 Jun 2017 05:24:42: 11000000 INFO @ Wed, 28 Jun 2017 05:24:45: 10000000 INFO @ Wed, 28 Jun 2017 05:24:49: 12000000 INFO @ Wed, 28 Jun 2017 05:24:49: 12000000 INFO @ Wed, 28 Jun 2017 05:24:52: 11000000 INFO @ Wed, 28 Jun 2017 05:24:56: 13000000 INFO @ Wed, 28 Jun 2017 05:24:56: 13000000 INFO @ Wed, 28 Jun 2017 05:24:59: 12000000 INFO @ Wed, 28 Jun 2017 05:25:03: 14000000 INFO @ Wed, 28 Jun 2017 05:25:03: 14000000 INFO @ Wed, 28 Jun 2017 05:25:06: 13000000 INFO @ Wed, 28 Jun 2017 05:25:10: 15000000 INFO @ Wed, 28 Jun 2017 05:25:10: 15000000 INFO @ Wed, 28 Jun 2017 05:25:13: 14000000 INFO @ Wed, 28 Jun 2017 05:25:15: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:25:15: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:25:15: #1 total tags in treatment: 7847214 INFO @ Wed, 28 Jun 2017 05:25:15: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:25:15: #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 05:25:15: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:25:15: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:25:15: #1 total tags in treatment: 7847214 INFO @ Wed, 28 Jun 2017 05:25:15: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:25:15: #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 05:25:16: #1 tags after filtering in treatment: 6380996 INFO @ Wed, 28 Jun 2017 05:25:16: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 28 Jun 2017 05:25:16: #1 finished! INFO @ Wed, 28 Jun 2017 05:25:16: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:25:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:25:16: #1 tags after filtering in treatment: 6380996 INFO @ Wed, 28 Jun 2017 05:25:16: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 28 Jun 2017 05:25:16: #1 finished! INFO @ Wed, 28 Jun 2017 05:25:16: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:25:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:25:16: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:25:16: 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 05:25:16: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 05:25:16: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:25:16: 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 05:25:16: Process for pairing-model is terminated! cat: SRX1423700.20_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: SRX1423700.10_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) pass1 - making usageList (0 chroms): 1 millis rm: cannot remove `SRX1423700.20_model.r'needLargeMem: trying to allocate 0 bytes (limit: 17179869184) : 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 `SRX1423700.20_*.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 `SRX1423700.20_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 rm: cannot remove `SRX1423700.10_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 `SRX1423700.10_*.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 `SRX1423700.10_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 05:25:20: 15000000 INFO @ Wed, 28 Jun 2017 05:25:26: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:25:26: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:25:26: #1 total tags in treatment: 7847214 INFO @ Wed, 28 Jun 2017 05:25:26: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:25:26: #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 05:25:26: #1 tags after filtering in treatment: 6380996 INFO @ Wed, 28 Jun 2017 05:25:26: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 28 Jun 2017 05:25:26: #1 finished! INFO @ Wed, 28 Jun 2017 05:25:26: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:25:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:25:26: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:25:26: 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 05:25:26: Process for pairing-model is terminated! cat: SRX1423700.05_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 `SRX1423700.05_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 `SRX1423700.05_*.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 `SRX1423700.05_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。