Job ID = 10937516 sra ファイルのダウンロード中... Completed: 405617K bytes transferred in 46 seconds (70733K bits/sec), in 1 file. Completed: 1642719K bytes transferred in 74 seconds (180672K 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... Read 4296246 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3010317/SRR5833313.sra Written 4296246 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3010317/SRR5833313.sra Read 18053019 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3010317/SRR5833314.sra Written 18053019 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3010317/SRR5833314.sra 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 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: 00:05:32 22349265 reads; of these: 22349265 (100.00%) were paired; of these: 20592218 (92.14%) aligned concordantly 0 times 1041074 (4.66%) aligned concordantly exactly 1 time 715973 (3.20%) aligned concordantly >1 times ---- 20592218 pairs aligned concordantly 0 times; of these: 8553 (0.04%) aligned discordantly 1 time ---- 20583665 pairs aligned 0 times concordantly or discordantly; of these: 41167330 mates make up the pairs; of these: 41112266 (99.87%) aligned 0 times 27593 (0.07%) aligned exactly 1 time 27471 (0.07%) aligned >1 times 8.02% overall alignment rate Time searching: 00:05:32 Overall time: 00:05:32 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_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] 298030 / 1764976 = 0.1689 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, 10 Aug 2018 02:36:40: # Command line: callpeak -t SRX3010317.bam -f BAM -g 12100000 -n SRX3010317.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3010317.20 # format = BAM # ChIP-seq file = ['SRX3010317.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, 10 Aug 2018 02:36:40: # Command line: callpeak -t SRX3010317.bam -f BAM -g 12100000 -n SRX3010317.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3010317.10 # format = BAM # ChIP-seq file = ['SRX3010317.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, 10 Aug 2018 02:36:40: # Command line: callpeak -t SRX3010317.bam -f BAM -g 12100000 -n SRX3010317.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3010317.05 # format = BAM # ChIP-seq file = ['SRX3010317.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, 10 Aug 2018 02:36:40: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:36:40: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:36:40: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:36:40: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:36:40: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:36:40: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:36:47: 1000000 INFO @ Fri, 10 Aug 2018 02:36:47: 1000000 INFO @ Fri, 10 Aug 2018 02:36:47: 1000000 INFO @ Fri, 10 Aug 2018 02:36:54: 2000000 INFO @ Fri, 10 Aug 2018 02:36:54: 2000000 INFO @ Fri, 10 Aug 2018 02:36:54: 2000000 INFO @ Fri, 10 Aug 2018 02:37:02: #1 tag size is determined as 101 bps INFO @ Fri, 10 Aug 2018 02:37:02: #1 tag size = 101 INFO @ Fri, 10 Aug 2018 02:37:02: #1 total tags in treatment: 1459611 INFO @ Fri, 10 Aug 2018 02:37:02: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:37:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 02:37:02: #1 tags after filtering in treatment: 896804 INFO @ Fri, 10 Aug 2018 02:37:02: #1 Redundant rate of treatment: 0.39 INFO @ Fri, 10 Aug 2018 02:37:02: #1 finished! INFO @ Fri, 10 Aug 2018 02:37:02: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:37:02: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:37:02: #1 tag size is determined as 101 bps INFO @ Fri, 10 Aug 2018 02:37:02: #1 tag size = 101 INFO @ Fri, 10 Aug 2018 02:37:02: #1 total tags in treatment: 1459611 INFO @ Fri, 10 Aug 2018 02:37:02: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:37:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 02:37:02: #1 tag size is determined as 101 bps INFO @ Fri, 10 Aug 2018 02:37:02: #1 tag size = 101 INFO @ Fri, 10 Aug 2018 02:37:02: #1 total tags in treatment: 1459611 INFO @ Fri, 10 Aug 2018 02:37:02: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:37:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 02:37:02: #1 tags after filtering in treatment: 896804 INFO @ Fri, 10 Aug 2018 02:37:02: #1 Redundant rate of treatment: 0.39 INFO @ Fri, 10 Aug 2018 02:37:02: #1 finished! INFO @ Fri, 10 Aug 2018 02:37:02: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:37:02: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:37:02: #1 tags after filtering in treatment: 896804 INFO @ Fri, 10 Aug 2018 02:37:02: #1 Redundant rate of treatment: 0.39 INFO @ Fri, 10 Aug 2018 02:37:02: #1 finished! INFO @ Fri, 10 Aug 2018 02:37:02: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:37:02: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:37:02: #2 number of paired peaks: 93 WARNING @ Fri, 10 Aug 2018 02:37:02: Too few paired peaks (93) 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, 10 Aug 2018 02:37:02: Process for pairing-model is terminated! cat: SRX3010317.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Fri, 10 Aug 2018 02:37:02: #2 number of paired peaks: 93 WARNING @ Fri, 10 Aug 2018 02:37:02: Too few paired peaks (93) 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, 10 Aug 2018 02:37:02: Process for pairing-model is terminated! INFO @ Fri, 10 Aug 2018 02:37:02: #2 number of paired peaks: 93 WARNING @ Fri, 10 Aug 2018 02:37:02: Too few paired peaks (93) 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, 10 Aug 2018 02:37:02: Process for pairing-model is terminated! cat: SRX3010317.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) cat: SRX3010317.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません rm: cannot remove `SRX3010317.10_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 `SRX3010317.10_*.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 `SRX3010317.10_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 2 millis rm: cannot remove `SRX3010317.05_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 `SRX3010317.05_*.xls': そのようなファイルやディレクトリはありません needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3010317.05_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 rm: cannot remove `SRX3010317.20_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 `SRX3010317.20_*.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 `SRX3010317.20_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。