Job ID = 9161969 sra ファイルのダウンロード中... Completed: 1005435K bytes transferred in 11 seconds (721063K 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 24176184 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423701/SRR2930990.sra Written 24176184 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: 00:18:49 24176184 reads; of these: 24176184 (100.00%) were paired; of these: 886972 (3.67%) aligned concordantly 0 times 21086220 (87.22%) aligned concordantly exactly 1 time 2202992 (9.11%) aligned concordantly >1 times ---- 886972 pairs aligned concordantly 0 times; of these: 38794 (4.37%) aligned discordantly 1 time ---- 848178 pairs aligned 0 times concordantly or discordantly; of these: 1696356 mates make up the pairs; of these: 1502117 (88.55%) aligned 0 times 160851 (9.48%) aligned exactly 1 time 33388 (1.97%) aligned >1 times 96.89% overall alignment rate Time searching: 00:18:49 Overall time: 00:18:49 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 20 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] 13045766 / 23295756 = 0.5600 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 05:36:20: # Command line: callpeak -t SRX1423701.bam -f BAM -g 12100000 -n SRX1423701.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423701.10 # format = BAM # ChIP-seq file = ['SRX1423701.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 05:36:20: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:36:20: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:36:20: # Command line: callpeak -t SRX1423701.bam -f BAM -g 12100000 -n SRX1423701.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423701.05 # format = BAM # ChIP-seq file = ['SRX1423701.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 05:36:20: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:36:20: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:36:20: # Command line: callpeak -t SRX1423701.bam -f BAM -g 12100000 -n SRX1423701.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423701.20 # format = BAM # ChIP-seq file = ['SRX1423701.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 05:36:20: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:36:20: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:36:25: 1000000 INFO @ Wed, 28 Jun 2017 05:36:25: 1000000 INFO @ Wed, 28 Jun 2017 05:36:26: 1000000 INFO @ Wed, 28 Jun 2017 05:36:30: 2000000 INFO @ Wed, 28 Jun 2017 05:36:31: 2000000 INFO @ Wed, 28 Jun 2017 05:36:31: 2000000 INFO @ Wed, 28 Jun 2017 05:36:35: 3000000 INFO @ Wed, 28 Jun 2017 05:36:36: 3000000 INFO @ Wed, 28 Jun 2017 05:36:36: 3000000 INFO @ Wed, 28 Jun 2017 05:36:40: 4000000 INFO @ Wed, 28 Jun 2017 05:36:41: 4000000 INFO @ Wed, 28 Jun 2017 05:36:42: 4000000 INFO @ Wed, 28 Jun 2017 05:36:45: 5000000 INFO @ Wed, 28 Jun 2017 05:36:47: 5000000 INFO @ Wed, 28 Jun 2017 05:36:48: 5000000 INFO @ Wed, 28 Jun 2017 05:36:51: 6000000 INFO @ Wed, 28 Jun 2017 05:36:53: 6000000 INFO @ Wed, 28 Jun 2017 05:36:53: 6000000 INFO @ Wed, 28 Jun 2017 05:36:55: 7000000 INFO @ Wed, 28 Jun 2017 05:36:58: 7000000 INFO @ Wed, 28 Jun 2017 05:36:59: 7000000 INFO @ Wed, 28 Jun 2017 05:37:00: 8000000 INFO @ Wed, 28 Jun 2017 05:37:04: 8000000 INFO @ Wed, 28 Jun 2017 05:37:05: 8000000 INFO @ Wed, 28 Jun 2017 05:37:05: 9000000 INFO @ Wed, 28 Jun 2017 05:37:09: 9000000 INFO @ Wed, 28 Jun 2017 05:37:10: 10000000 INFO @ Wed, 28 Jun 2017 05:37:10: 9000000 INFO @ Wed, 28 Jun 2017 05:37:15: 11000000 INFO @ Wed, 28 Jun 2017 05:37:15: 10000000 INFO @ Wed, 28 Jun 2017 05:37:17: 10000000 INFO @ Wed, 28 Jun 2017 05:37:20: 12000000 INFO @ Wed, 28 Jun 2017 05:37:21: 11000000 INFO @ Wed, 28 Jun 2017 05:37:22: 11000000 INFO @ Wed, 28 Jun 2017 05:37:25: 13000000 INFO @ Wed, 28 Jun 2017 05:37:27: 12000000 INFO @ Wed, 28 Jun 2017 05:37:28: 12000000 INFO @ Wed, 28 Jun 2017 05:37:30: 14000000 INFO @ Wed, 28 Jun 2017 05:37:32: 13000000 INFO @ Wed, 28 Jun 2017 05:37:34: 13000000 INFO @ Wed, 28 Jun 2017 05:37:35: 15000000 INFO @ Wed, 28 Jun 2017 05:37:38: 14000000 INFO @ Wed, 28 Jun 2017 05:37:40: 14000000 INFO @ Wed, 28 Jun 2017 05:37:40: 16000000 INFO @ Wed, 28 Jun 2017 05:37:43: 15000000 INFO @ Wed, 28 Jun 2017 05:37:45: 17000000 INFO @ Wed, 28 Jun 2017 05:37:45: 15000000 INFO @ Wed, 28 Jun 2017 05:37:49: 16000000 INFO @ Wed, 28 Jun 2017 05:37:50: 18000000 INFO @ Wed, 28 Jun 2017 05:37:51: 16000000 INFO @ Wed, 28 Jun 2017 05:37:55: 17000000 INFO @ Wed, 28 Jun 2017 05:37:55: 19000000 INFO @ Wed, 28 Jun 2017 05:37:57: 17000000 INFO @ Wed, 28 Jun 2017 05:38:00: 20000000 INFO @ Wed, 28 Jun 2017 05:38:00: 18000000 INFO @ Wed, 28 Jun 2017 05:38:03: 18000000 INFO @ Wed, 28 Jun 2017 05:38:04: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:38:04: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:38:04: #1 total tags in treatment: 10245368 INFO @ Wed, 28 Jun 2017 05:38:04: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:38:04: #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 05:38:04: #1 tags after filtering in treatment: 7858954 INFO @ Wed, 28 Jun 2017 05:38:04: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 28 Jun 2017 05:38:04: #1 finished! INFO @ Wed, 28 Jun 2017 05:38:04: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:38:04: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:38:05: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:38:05: 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 05:38:05: Process for pairing-model is terminated! cat: SRX1423701.10_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 `SRX1423701.10_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 `SRX1423701.10_*.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 `SRX1423701.10_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 05:38:06: 19000000 INFO @ Wed, 28 Jun 2017 05:38:09: 19000000 INFO @ Wed, 28 Jun 2017 05:38:12: 20000000 INFO @ Wed, 28 Jun 2017 05:38:15: 20000000 INFO @ Wed, 28 Jun 2017 05:38:16: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:38:16: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:38:16: #1 total tags in treatment: 10245368 INFO @ Wed, 28 Jun 2017 05:38:16: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:38:16: #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 05:38:16: #1 tags after filtering in treatment: 7858954 INFO @ Wed, 28 Jun 2017 05:38:16: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 28 Jun 2017 05:38:16: #1 finished! INFO @ Wed, 28 Jun 2017 05:38:16: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:38:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:38:17: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:38:17: 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 05:38:17: Process for pairing-model is terminated! cat: SRX1423701.05_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 `SRX1423701.05_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 `SRX1423701.05_*.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 `SRX1423701.05_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 05:38:19: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:38:19: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:38:19: #1 total tags in treatment: 10245368 INFO @ Wed, 28 Jun 2017 05:38:19: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:38:19: #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 05:38:19: #1 tags after filtering in treatment: 7858954 INFO @ Wed, 28 Jun 2017 05:38:19: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 28 Jun 2017 05:38:19: #1 finished! INFO @ Wed, 28 Jun 2017 05:38:19: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:38:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:38:19: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:38:19: 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 05:38:19: Process for pairing-model is terminated! cat: SRX1423701.20_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 `SRX1423701.20_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 `SRX1423701.20_*.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 `SRX1423701.20_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。