Job ID = 9732048 sra ファイルのダウンロード中... Completed: 237824K bytes transferred in 14 seconds (131989K 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 10822040 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2675850/SRR5380626.sra Written 10822040 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: 00:05:12 10822040 reads; of these: 10822040 (100.00%) were paired; of these: 3085337 (28.51%) aligned concordantly 0 times 6712489 (62.03%) aligned concordantly exactly 1 time 1024214 (9.46%) aligned concordantly >1 times ---- 3085337 pairs aligned concordantly 0 times; of these: 467050 (15.14%) aligned discordantly 1 time ---- 2618287 pairs aligned 0 times concordantly or discordantly; of these: 5236574 mates make up the pairs; of these: 4748999 (90.69%) aligned 0 times 304011 (5.81%) aligned exactly 1 time 183564 (3.51%) aligned >1 times 78.06% overall alignment rate Time searching: 00:05:12 Overall time: 00:05:12 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] 987379 / 8118917 = 0.1216 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, 03 Sep 2017 19:19:45: # Command line: callpeak -t SRX2675850.bam -f BAM -g 12100000 -n SRX2675850.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2675850.20 # format = BAM # ChIP-seq file = ['SRX2675850.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, 03 Sep 2017 19:19:45: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:19:45: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:19:45: # Command line: callpeak -t SRX2675850.bam -f BAM -g 12100000 -n SRX2675850.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2675850.05 # format = BAM # ChIP-seq file = ['SRX2675850.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, 03 Sep 2017 19:19:45: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:19:45: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:19:45: # Command line: callpeak -t SRX2675850.bam -f BAM -g 12100000 -n SRX2675850.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2675850.10 # format = BAM # ChIP-seq file = ['SRX2675850.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, 03 Sep 2017 19:19:45: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:19:45: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:19:50: 1000000 INFO @ Sun, 03 Sep 2017 19:19:50: 1000000 INFO @ Sun, 03 Sep 2017 19:19:50: 1000000 INFO @ Sun, 03 Sep 2017 19:19:54: 2000000 INFO @ Sun, 03 Sep 2017 19:19:54: 2000000 INFO @ Sun, 03 Sep 2017 19:19:54: 2000000 INFO @ Sun, 03 Sep 2017 19:19:59: 3000000 INFO @ Sun, 03 Sep 2017 19:19:59: 3000000 INFO @ Sun, 03 Sep 2017 19:19:59: 3000000 INFO @ Sun, 03 Sep 2017 19:20:03: 4000000 INFO @ Sun, 03 Sep 2017 19:20:03: 4000000 INFO @ Sun, 03 Sep 2017 19:20:04: 4000000 INFO @ Sun, 03 Sep 2017 19:20:08: 5000000 INFO @ Sun, 03 Sep 2017 19:20:08: 5000000 INFO @ Sun, 03 Sep 2017 19:20:08: 5000000 INFO @ Sun, 03 Sep 2017 19:20:12: 6000000 INFO @ Sun, 03 Sep 2017 19:20:12: 6000000 INFO @ Sun, 03 Sep 2017 19:20:13: 6000000 INFO @ Sun, 03 Sep 2017 19:20:17: 7000000 INFO @ Sun, 03 Sep 2017 19:20:17: 7000000 INFO @ Sun, 03 Sep 2017 19:20:17: 7000000 INFO @ Sun, 03 Sep 2017 19:20:21: 8000000 INFO @ Sun, 03 Sep 2017 19:20:21: 8000000 INFO @ Sun, 03 Sep 2017 19:20:22: 8000000 INFO @ Sun, 03 Sep 2017 19:20:25: 9000000 INFO @ Sun, 03 Sep 2017 19:20:26: 9000000 INFO @ Sun, 03 Sep 2017 19:20:27: 9000000 INFO @ Sun, 03 Sep 2017 19:20:30: 10000000 INFO @ Sun, 03 Sep 2017 19:20:30: 10000000 INFO @ Sun, 03 Sep 2017 19:20:31: 10000000 INFO @ Sun, 03 Sep 2017 19:20:34: 11000000 INFO @ Sun, 03 Sep 2017 19:20:35: 11000000 INFO @ Sun, 03 Sep 2017 19:20:36: 11000000 INFO @ Sun, 03 Sep 2017 19:20:39: 12000000 INFO @ Sun, 03 Sep 2017 19:20:40: 12000000 INFO @ Sun, 03 Sep 2017 19:20:41: 12000000 INFO @ Sun, 03 Sep 2017 19:20:43: 13000000 INFO @ Sun, 03 Sep 2017 19:20:44: 13000000 INFO @ Sun, 03 Sep 2017 19:20:46: 13000000 INFO @ Sun, 03 Sep 2017 19:20:48: 14000000 INFO @ Sun, 03 Sep 2017 19:20:49: 14000000 INFO @ Sun, 03 Sep 2017 19:20:51: 14000000 INFO @ Sun, 03 Sep 2017 19:20:52: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:20:52: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:20:52: #1 total tags in treatment: 6756268 INFO @ Sun, 03 Sep 2017 19:20:52: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:20:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Sep 2017 19:20:52: #1 tags after filtering in treatment: 3533998 INFO @ Sun, 03 Sep 2017 19:20:52: #1 Redundant rate of treatment: 0.48 INFO @ Sun, 03 Sep 2017 19:20:52: #1 finished! INFO @ Sun, 03 Sep 2017 19:20:52: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:20:52: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:20:53: #2 number of paired peaks: 24 WARNING @ Sun, 03 Sep 2017 19:20:53: Too few paired peaks (24) 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, 03 Sep 2017 19:20:53: Process for pairing-model is terminated! cat: SRX2675850.20_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): 8 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675850.20_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 `SRX2675850.20_*.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 `SRX2675850.20_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 INFO @ Sun, 03 Sep 2017 19:20:54: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:20:54: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:20:54: #1 total tags in treatment: 6756268 INFO @ Sun, 03 Sep 2017 19:20:54: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:20:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Sep 2017 19:20:54: #1 tags after filtering in treatment: 3533998 INFO @ Sun, 03 Sep 2017 19:20:54: #1 Redundant rate of treatment: 0.48 INFO @ Sun, 03 Sep 2017 19:20:54: #1 finished! INFO @ Sun, 03 Sep 2017 19:20:54: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:20:54: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:20:54: #2 number of paired peaks: 24 WARNING @ Sun, 03 Sep 2017 19:20:54: Too few paired peaks (24) 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, 03 Sep 2017 19:20:54: Process for pairing-model is terminated! cat: SRX2675850.05_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): 12 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675850.05_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 `SRX2675850.05_*.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 `SRX2675850.05_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, 03 Sep 2017 19:20:55: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:20:55: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:20:55: #1 total tags in treatment: 6756268 INFO @ Sun, 03 Sep 2017 19:20:55: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:20:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Sep 2017 19:20:55: #1 tags after filtering in treatment: 3533998 INFO @ Sun, 03 Sep 2017 19:20:55: #1 Redundant rate of treatment: 0.48 INFO @ Sun, 03 Sep 2017 19:20:55: #1 finished! INFO @ Sun, 03 Sep 2017 19:20:55: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:20:55: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:20:56: #2 number of paired peaks: 24 WARNING @ Sun, 03 Sep 2017 19:20:56: Too few paired peaks (24) 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, 03 Sep 2017 19:20:56: Process for pairing-model is terminated! cat: SRX2675850.10_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): 7 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675850.10_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 `SRX2675850.10_*.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 `SRX2675850.10_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。