Job ID = 9161986 sra ファイルのダウンロード中... Completed: 1319377K bytes transferred in 15 seconds (715268K 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 20954044 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423718/SRR2931007.sra Written 20954044 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: 00:14:23 20954044 reads; of these: 20954044 (100.00%) were paired; of these: 3839184 (18.32%) aligned concordantly 0 times 14515225 (69.27%) aligned concordantly exactly 1 time 2599635 (12.41%) aligned concordantly >1 times ---- 3839184 pairs aligned concordantly 0 times; of these: 59097 (1.54%) aligned discordantly 1 time ---- 3780087 pairs aligned 0 times concordantly or discordantly; of these: 7560174 mates make up the pairs; of these: 7414924 (98.08%) aligned 0 times 93351 (1.23%) aligned exactly 1 time 51899 (0.69%) aligned >1 times 82.31% overall alignment rate Time searching: 00:14:23 Overall time: 00:14:23 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 16 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] 7603473 / 17146833 = 0.4434 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 05:34:14: # Command line: callpeak -t SRX1423718.bam -f BAM -g 12100000 -n SRX1423718.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423718.05 # format = BAM # ChIP-seq file = ['SRX1423718.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 05:34:14: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:34:14: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:34:14: # Command line: callpeak -t SRX1423718.bam -f BAM -g 12100000 -n SRX1423718.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423718.10 # format = BAM # ChIP-seq file = ['SRX1423718.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 05:34:14: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:34:14: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:34:14: # Command line: callpeak -t SRX1423718.bam -f BAM -g 12100000 -n SRX1423718.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423718.20 # format = BAM # ChIP-seq file = ['SRX1423718.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 05:34:14: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:34:14: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:34:21: 1000000 INFO @ Wed, 28 Jun 2017 05:34:21: 1000000 INFO @ Wed, 28 Jun 2017 05:34:21: 1000000 INFO @ Wed, 28 Jun 2017 05:34:27: 2000000 INFO @ Wed, 28 Jun 2017 05:34:28: 2000000 INFO @ Wed, 28 Jun 2017 05:34:28: 2000000 INFO @ Wed, 28 Jun 2017 05:34:34: 3000000 INFO @ Wed, 28 Jun 2017 05:34:35: 3000000 INFO @ Wed, 28 Jun 2017 05:34:35: 3000000 INFO @ Wed, 28 Jun 2017 05:34:41: 4000000 INFO @ Wed, 28 Jun 2017 05:34:42: 4000000 INFO @ Wed, 28 Jun 2017 05:34:42: 4000000 INFO @ Wed, 28 Jun 2017 05:34:48: 5000000 INFO @ Wed, 28 Jun 2017 05:34:49: 5000000 INFO @ Wed, 28 Jun 2017 05:34:49: 5000000 INFO @ Wed, 28 Jun 2017 05:34:54: 6000000 INFO @ Wed, 28 Jun 2017 05:34:56: 6000000 INFO @ Wed, 28 Jun 2017 05:34:56: 6000000 INFO @ Wed, 28 Jun 2017 05:35:01: 7000000 INFO @ Wed, 28 Jun 2017 05:35:03: 7000000 INFO @ Wed, 28 Jun 2017 05:35:03: 7000000 INFO @ Wed, 28 Jun 2017 05:35:08: 8000000 INFO @ Wed, 28 Jun 2017 05:35:10: 8000000 INFO @ Wed, 28 Jun 2017 05:35:10: 8000000 INFO @ Wed, 28 Jun 2017 05:35:15: 9000000 INFO @ Wed, 28 Jun 2017 05:35:17: 9000000 INFO @ Wed, 28 Jun 2017 05:35:17: 9000000 INFO @ Wed, 28 Jun 2017 05:35:21: 10000000 INFO @ Wed, 28 Jun 2017 05:35:24: 10000000 INFO @ Wed, 28 Jun 2017 05:35:24: 10000000 INFO @ Wed, 28 Jun 2017 05:35:28: 11000000 INFO @ Wed, 28 Jun 2017 05:35:31: 11000000 INFO @ Wed, 28 Jun 2017 05:35:31: 11000000 INFO @ Wed, 28 Jun 2017 05:35:35: 12000000 INFO @ Wed, 28 Jun 2017 05:35:38: 12000000 INFO @ Wed, 28 Jun 2017 05:35:38: 12000000 INFO @ Wed, 28 Jun 2017 05:35:42: 13000000 INFO @ Wed, 28 Jun 2017 05:35:45: 13000000 INFO @ Wed, 28 Jun 2017 05:35:45: 13000000 INFO @ Wed, 28 Jun 2017 05:35:48: 14000000 INFO @ Wed, 28 Jun 2017 05:35:52: 14000000 INFO @ Wed, 28 Jun 2017 05:35:52: 14000000 INFO @ Wed, 28 Jun 2017 05:35:55: 15000000 INFO @ Wed, 28 Jun 2017 05:35:59: 15000000 INFO @ Wed, 28 Jun 2017 05:35:59: 15000000 INFO @ Wed, 28 Jun 2017 05:36:02: 16000000 INFO @ Wed, 28 Jun 2017 05:36:06: 16000000 INFO @ Wed, 28 Jun 2017 05:36:06: 16000000 INFO @ Wed, 28 Jun 2017 05:36:08: 17000000 INFO @ Wed, 28 Jun 2017 05:36:13: 17000000 INFO @ Wed, 28 Jun 2017 05:36:13: 17000000 INFO @ Wed, 28 Jun 2017 05:36:15: 18000000 INFO @ Wed, 28 Jun 2017 05:36:20: 18000000 INFO @ Wed, 28 Jun 2017 05:36:20: 18000000 INFO @ Wed, 28 Jun 2017 05:36:22: 19000000 INFO @ Wed, 28 Jun 2017 05:36:24: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:36:24: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:36:24: #1 total tags in treatment: 9542205 INFO @ Wed, 28 Jun 2017 05:36:24: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:36:24: #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 05:36:24: #1 tags after filtering in treatment: 6408753 INFO @ Wed, 28 Jun 2017 05:36:24: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 28 Jun 2017 05:36:24: #1 finished! INFO @ Wed, 28 Jun 2017 05:36:24: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:36:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:36:24: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:36:24: 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 05:36:24: Process for pairing-model is terminated! cat: SRX1423718.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1423718.10_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 `SRX1423718.10_*.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 `SRX1423718.10_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 05:36:27: 19000000 INFO @ Wed, 28 Jun 2017 05:36:27: 19000000 INFO @ Wed, 28 Jun 2017 05:36:29: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:36:29: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:36:29: #1 total tags in treatment: 9542205 INFO @ Wed, 28 Jun 2017 05:36:29: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:36:29: #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 05:36:29: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:36:29: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:36:29: #1 total tags in treatment: 9542205 INFO @ Wed, 28 Jun 2017 05:36:29: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:36:29: #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 05:36:29: #1 tags after filtering in treatment: 6408753 INFO @ Wed, 28 Jun 2017 05:36:29: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 28 Jun 2017 05:36:29: #1 finished! INFO @ Wed, 28 Jun 2017 05:36:29: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:36:29: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:36:29: #1 tags after filtering in treatment: 6408753 INFO @ Wed, 28 Jun 2017 05:36:29: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 28 Jun 2017 05:36:29: #1 finished! INFO @ Wed, 28 Jun 2017 05:36:29: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:36:29: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:36:29: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:36:29: 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 05:36:29: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 05:36:29: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:36:29: 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 05:36:29: Process for pairing-model is terminated! cat: SRX1423718.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX1423718.20_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 `SRX1423718.05_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 `SRX1423718.05_*.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 `SRX1423718.05_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): 0 millis CompletedMACS2peakCalling needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1423718.20_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 `SRX1423718.20_*.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 `SRX1423718.20_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。