Job ID = 9302978 sra ファイルのダウンロード中... Completed: 802093K bytes transferred in 18 seconds (351817K 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 14847910 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2961331/SRR5761580.sra Written 14847910 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: 00:10:34 14847910 reads; of these: 14847910 (100.00%) were paired; of these: 944480 (6.36%) aligned concordantly 0 times 13104356 (88.26%) aligned concordantly exactly 1 time 799074 (5.38%) aligned concordantly >1 times ---- 944480 pairs aligned concordantly 0 times; of these: 176300 (18.67%) aligned discordantly 1 time ---- 768180 pairs aligned 0 times concordantly or discordantly; of these: 1536360 mates make up the pairs; of these: 1231035 (80.13%) aligned 0 times 200819 (13.07%) aligned exactly 1 time 104506 (6.80%) aligned >1 times 95.85% overall alignment rate Time searching: 00:10:34 Overall time: 00:10:34 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] 1722034 / 13923493 = 0.1237 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 @ Fri, 28 Jul 2017 12:00:39: # Command line: callpeak -t SRX2961331.bam -f BAM -g 12100000 -n SRX2961331.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2961331.05 # format = BAM # ChIP-seq file = ['SRX2961331.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 @ Fri, 28 Jul 2017 12:00:39: #1 read tag files... INFO @ Fri, 28 Jul 2017 12:00:39: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 12:00:39: # Command line: callpeak -t SRX2961331.bam -f BAM -g 12100000 -n SRX2961331.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2961331.10 # format = BAM # ChIP-seq file = ['SRX2961331.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 @ Fri, 28 Jul 2017 12:00:39: #1 read tag files... INFO @ Fri, 28 Jul 2017 12:00:39: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 12:00:39: # Command line: callpeak -t SRX2961331.bam -f BAM -g 12100000 -n SRX2961331.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2961331.20 # format = BAM # ChIP-seq file = ['SRX2961331.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 @ Fri, 28 Jul 2017 12:00:39: #1 read tag files... INFO @ Fri, 28 Jul 2017 12:00:39: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 12:00:44: 1000000 INFO @ Fri, 28 Jul 2017 12:00:44: 1000000 INFO @ Fri, 28 Jul 2017 12:00:44: 1000000 INFO @ Fri, 28 Jul 2017 12:00:50: 2000000 INFO @ Fri, 28 Jul 2017 12:00:50: 2000000 INFO @ Fri, 28 Jul 2017 12:00:50: 2000000 INFO @ Fri, 28 Jul 2017 12:00:56: 3000000 INFO @ Fri, 28 Jul 2017 12:00:56: 3000000 INFO @ Fri, 28 Jul 2017 12:00:56: 3000000 INFO @ Fri, 28 Jul 2017 12:01:02: 4000000 INFO @ Fri, 28 Jul 2017 12:01:02: 4000000 INFO @ Fri, 28 Jul 2017 12:01:02: 4000000 INFO @ Fri, 28 Jul 2017 12:01:08: 5000000 INFO @ Fri, 28 Jul 2017 12:01:08: 5000000 INFO @ Fri, 28 Jul 2017 12:01:08: 5000000 INFO @ Fri, 28 Jul 2017 12:01:14: 6000000 INFO @ Fri, 28 Jul 2017 12:01:14: 6000000 INFO @ Fri, 28 Jul 2017 12:01:14: 6000000 INFO @ Fri, 28 Jul 2017 12:01:19: 7000000 INFO @ Fri, 28 Jul 2017 12:01:19: 7000000 INFO @ Fri, 28 Jul 2017 12:01:19: 7000000 INFO @ Fri, 28 Jul 2017 12:01:25: 8000000 INFO @ Fri, 28 Jul 2017 12:01:25: 8000000 INFO @ Fri, 28 Jul 2017 12:01:25: 8000000 INFO @ Fri, 28 Jul 2017 12:01:31: 9000000 INFO @ Fri, 28 Jul 2017 12:01:31: 9000000 INFO @ Fri, 28 Jul 2017 12:01:31: 9000000 INFO @ Fri, 28 Jul 2017 12:01:37: 10000000 INFO @ Fri, 28 Jul 2017 12:01:37: 10000000 INFO @ Fri, 28 Jul 2017 12:01:37: 10000000 INFO @ Fri, 28 Jul 2017 12:01:43: 11000000 INFO @ Fri, 28 Jul 2017 12:01:43: 11000000 INFO @ Fri, 28 Jul 2017 12:01:43: 11000000 INFO @ Fri, 28 Jul 2017 12:01:48: 12000000 INFO @ Fri, 28 Jul 2017 12:01:48: 12000000 INFO @ Fri, 28 Jul 2017 12:01:48: 12000000 INFO @ Fri, 28 Jul 2017 12:01:54: 13000000 INFO @ Fri, 28 Jul 2017 12:01:54: 13000000 INFO @ Fri, 28 Jul 2017 12:01:54: 13000000 INFO @ Fri, 28 Jul 2017 12:02:00: 14000000 INFO @ Fri, 28 Jul 2017 12:02:00: 14000000 INFO @ Fri, 28 Jul 2017 12:02:00: 14000000 INFO @ Fri, 28 Jul 2017 12:02:06: 15000000 INFO @ Fri, 28 Jul 2017 12:02:06: 15000000 INFO @ Fri, 28 Jul 2017 12:02:06: 15000000 INFO @ Fri, 28 Jul 2017 12:02:11: 16000000 INFO @ Fri, 28 Jul 2017 12:02:11: 16000000 INFO @ Fri, 28 Jul 2017 12:02:12: 16000000 INFO @ Fri, 28 Jul 2017 12:02:17: 17000000 INFO @ Fri, 28 Jul 2017 12:02:17: 17000000 INFO @ Fri, 28 Jul 2017 12:02:17: 17000000 INFO @ Fri, 28 Jul 2017 12:02:23: 18000000 INFO @ Fri, 28 Jul 2017 12:02:23: 18000000 INFO @ Fri, 28 Jul 2017 12:02:23: 18000000 INFO @ Fri, 28 Jul 2017 12:02:29: 19000000 INFO @ Fri, 28 Jul 2017 12:02:29: 19000000 INFO @ Fri, 28 Jul 2017 12:02:30: 19000000 INFO @ Fri, 28 Jul 2017 12:02:35: 20000000 INFO @ Fri, 28 Jul 2017 12:02:36: 20000000 INFO @ Fri, 28 Jul 2017 12:02:36: 20000000 INFO @ Fri, 28 Jul 2017 12:02:42: 21000000 INFO @ Fri, 28 Jul 2017 12:02:42: 21000000 INFO @ Fri, 28 Jul 2017 12:02:42: 21000000 INFO @ Fri, 28 Jul 2017 12:02:48: 22000000 INFO @ Fri, 28 Jul 2017 12:02:48: 22000000 INFO @ Fri, 28 Jul 2017 12:02:49: 22000000 INFO @ Fri, 28 Jul 2017 12:02:54: 23000000 INFO @ Fri, 28 Jul 2017 12:02:54: 23000000 INFO @ Fri, 28 Jul 2017 12:02:55: 23000000 INFO @ Fri, 28 Jul 2017 12:03:00: 24000000 INFO @ Fri, 28 Jul 2017 12:03:00: 24000000 INFO @ Fri, 28 Jul 2017 12:03:01: 24000000 INFO @ Fri, 28 Jul 2017 12:03:06: 25000000 INFO @ Fri, 28 Jul 2017 12:03:06: 25000000 INFO @ Fri, 28 Jul 2017 12:03:07: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 12:03:07: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 12:03:07: #1 total tags in treatment: 12181881 INFO @ Fri, 28 Jul 2017 12:03:07: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 12:03:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 12:03:07: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 12:03:07: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 12:03:07: #1 total tags in treatment: 12181881 INFO @ Fri, 28 Jul 2017 12:03:07: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 12:03:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 12:03:07: #1 tags after filtering in treatment: 5650464 INFO @ Fri, 28 Jul 2017 12:03:07: #1 Redundant rate of treatment: 0.54 INFO @ Fri, 28 Jul 2017 12:03:07: #1 finished! INFO @ Fri, 28 Jul 2017 12:03:07: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 12:03:07: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 12:03:07: #1 tags after filtering in treatment: 5650464 INFO @ Fri, 28 Jul 2017 12:03:07: #1 Redundant rate of treatment: 0.54 INFO @ Fri, 28 Jul 2017 12:03:07: #1 finished! INFO @ Fri, 28 Jul 2017 12:03:07: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 12:03:07: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 12:03:07: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 12:03:07: 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 @ Fri, 28 Jul 2017 12:03:07: Process for pairing-model is terminated! cat: SRX2961331.10_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 `SRX2961331.10_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 `SRX2961331.10_*.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 `SRX2961331.10_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 @ Fri, 28 Jul 2017 12:03:07: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 12:03:07: 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 @ Fri, 28 Jul 2017 12:03:07: Process for pairing-model is terminated! cat: SRX2961331.05_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 `SRX2961331.05_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 `SRX2961331.05_*.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 `SRX2961331.05_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 @ Fri, 28 Jul 2017 12:03:07: 25000000 INFO @ Fri, 28 Jul 2017 12:03:08: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 12:03:08: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 12:03:08: #1 total tags in treatment: 12181881 INFO @ Fri, 28 Jul 2017 12:03:08: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 12:03:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 12:03:08: #1 tags after filtering in treatment: 5650464 INFO @ Fri, 28 Jul 2017 12:03:08: #1 Redundant rate of treatment: 0.54 INFO @ Fri, 28 Jul 2017 12:03:08: #1 finished! INFO @ Fri, 28 Jul 2017 12:03:08: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 12:03:08: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 12:03:08: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 12:03:08: 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 @ Fri, 28 Jul 2017 12:03:08: Process for pairing-model is terminated! cat: SRX2961331.20_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 `SRX2961331.20_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 `SRX2961331.20_*.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 `SRX2961331.20_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。