Job ID = 10536345 sra ファイルのダウンロード中... Completed: 1266101K bytes transferred in 17 seconds (588182K bits/sec), in 1 file. 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 32721677 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3433212/SRR6333853.sra Written 32721677 spots total rm: cannot remove `[DSE]RX*': 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 `[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: 00:21:04 32721677 reads; of these: 32721677 (100.00%) were paired; of these: 7603563 (23.24%) aligned concordantly 0 times 22875621 (69.91%) aligned concordantly exactly 1 time 2242493 (6.85%) aligned concordantly >1 times ---- 7603563 pairs aligned concordantly 0 times; of these: 195881 (2.58%) aligned discordantly 1 time ---- 7407682 pairs aligned 0 times concordantly or discordantly; of these: 14815364 mates make up the pairs; of these: 14361884 (96.94%) aligned 0 times 364672 (2.46%) aligned exactly 1 time 88808 (0.60%) aligned >1 times 78.05% overall alignment rate Time searching: 00:21:04 Overall time: 00:21:04 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 24 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] 17163791 / 25139765 = 0.6827 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 @ Thu, 05 Apr 2018 09:13:34: # Command line: callpeak -t SRX3433212.bam -f BAM -g 12100000 -n SRX3433212.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3433212.20 # format = BAM # ChIP-seq file = ['SRX3433212.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 @ Thu, 05 Apr 2018 09:13:34: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:13:34: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:13:34: # Command line: callpeak -t SRX3433212.bam -f BAM -g 12100000 -n SRX3433212.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3433212.05 # format = BAM # ChIP-seq file = ['SRX3433212.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 @ Thu, 05 Apr 2018 09:13:34: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:13:34: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:13:34: # Command line: callpeak -t SRX3433212.bam -f BAM -g 12100000 -n SRX3433212.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3433212.10 # format = BAM # ChIP-seq file = ['SRX3433212.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 @ Thu, 05 Apr 2018 09:13:34: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:13:34: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:13:40: 1000000 INFO @ Thu, 05 Apr 2018 09:13:40: 1000000 INFO @ Thu, 05 Apr 2018 09:13:40: 1000000 INFO @ Thu, 05 Apr 2018 09:13:46: 2000000 INFO @ Thu, 05 Apr 2018 09:13:46: 2000000 INFO @ Thu, 05 Apr 2018 09:13:46: 2000000 INFO @ Thu, 05 Apr 2018 09:13:52: 3000000 INFO @ Thu, 05 Apr 2018 09:13:52: 3000000 INFO @ Thu, 05 Apr 2018 09:13:52: 3000000 INFO @ Thu, 05 Apr 2018 09:13:58: 4000000 INFO @ Thu, 05 Apr 2018 09:13:58: 4000000 INFO @ Thu, 05 Apr 2018 09:13:58: 4000000 INFO @ Thu, 05 Apr 2018 09:14:04: 5000000 INFO @ Thu, 05 Apr 2018 09:14:04: 5000000 INFO @ Thu, 05 Apr 2018 09:14:04: 5000000 INFO @ Thu, 05 Apr 2018 09:14:09: 6000000 INFO @ Thu, 05 Apr 2018 09:14:10: 6000000 INFO @ Thu, 05 Apr 2018 09:14:10: 6000000 INFO @ Thu, 05 Apr 2018 09:14:15: 7000000 INFO @ Thu, 05 Apr 2018 09:14:16: 7000000 INFO @ Thu, 05 Apr 2018 09:14:16: 7000000 INFO @ Thu, 05 Apr 2018 09:14:21: 8000000 INFO @ Thu, 05 Apr 2018 09:14:22: 8000000 INFO @ Thu, 05 Apr 2018 09:14:22: 8000000 INFO @ Thu, 05 Apr 2018 09:14:27: 9000000 INFO @ Thu, 05 Apr 2018 09:14:27: 9000000 INFO @ Thu, 05 Apr 2018 09:14:28: 9000000 INFO @ Thu, 05 Apr 2018 09:14:33: 10000000 INFO @ Thu, 05 Apr 2018 09:14:33: 10000000 INFO @ Thu, 05 Apr 2018 09:14:34: 10000000 INFO @ Thu, 05 Apr 2018 09:14:39: 11000000 INFO @ Thu, 05 Apr 2018 09:14:39: 11000000 INFO @ Thu, 05 Apr 2018 09:14:40: 11000000 INFO @ Thu, 05 Apr 2018 09:14:45: 12000000 INFO @ Thu, 05 Apr 2018 09:14:45: 12000000 INFO @ Thu, 05 Apr 2018 09:14:46: 12000000 INFO @ Thu, 05 Apr 2018 09:14:51: 13000000 INFO @ Thu, 05 Apr 2018 09:14:51: 13000000 INFO @ Thu, 05 Apr 2018 09:14:52: 13000000 INFO @ Thu, 05 Apr 2018 09:14:57: 14000000 INFO @ Thu, 05 Apr 2018 09:14:57: 14000000 INFO @ Thu, 05 Apr 2018 09:14:58: 14000000 INFO @ Thu, 05 Apr 2018 09:15:03: 15000000 INFO @ Thu, 05 Apr 2018 09:15:03: 15000000 INFO @ Thu, 05 Apr 2018 09:15:04: 15000000 INFO @ Thu, 05 Apr 2018 09:15:09: 16000000 INFO @ Thu, 05 Apr 2018 09:15:09: 16000000 INFO @ Thu, 05 Apr 2018 09:15:10: 16000000 INFO @ Thu, 05 Apr 2018 09:15:13: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:15:13: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:15:13: #1 total tags in treatment: 7967805 INFO @ Thu, 05 Apr 2018 09:15:13: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:15:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 09:15:13: #1 tags after filtering in treatment: 5734906 INFO @ Thu, 05 Apr 2018 09:15:13: #1 Redundant rate of treatment: 0.28 INFO @ Thu, 05 Apr 2018 09:15:13: #1 finished! INFO @ Thu, 05 Apr 2018 09:15:13: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:15:13: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:15:14: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:15:14: 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 @ Thu, 05 Apr 2018 09:15:14: Process for pairing-model is terminated! cat: SRX3433212.10_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 `SRX3433212.10_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 `SRX3433212.10_*.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 `SRX3433212.10_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 @ Thu, 05 Apr 2018 09:15:14: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:15:14: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:15:14: #1 total tags in treatment: 7967805 INFO @ Thu, 05 Apr 2018 09:15:14: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:15:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 09:15:14: #1 tags after filtering in treatment: 5734906 INFO @ Thu, 05 Apr 2018 09:15:14: #1 Redundant rate of treatment: 0.28 INFO @ Thu, 05 Apr 2018 09:15:14: #1 finished! INFO @ Thu, 05 Apr 2018 09:15:14: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:15:14: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:15:14: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:15:14: 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 @ Thu, 05 Apr 2018 09:15:14: Process for pairing-model is terminated! cat: SRX3433212.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Thu, 05 Apr 2018 09:15:14: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:15:14: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:15:14: #1 total tags in treatment: 7967805 INFO @ Thu, 05 Apr 2018 09:15:14: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:15:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3433212.05_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 `SRX3433212.05_*.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 `SRX3433212.05_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 @ Thu, 05 Apr 2018 09:15:15: #1 tags after filtering in treatment: 5734906 INFO @ Thu, 05 Apr 2018 09:15:15: #1 Redundant rate of treatment: 0.28 INFO @ Thu, 05 Apr 2018 09:15:15: #1 finished! INFO @ Thu, 05 Apr 2018 09:15:15: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:15:15: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:15:15: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:15:15: 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 @ Thu, 05 Apr 2018 09:15:15: Process for pairing-model is terminated! cat: SRX3433212.20_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 `SRX3433212.20_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 `SRX3433212.20_*.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 `SRX3433212.20_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。