Job ID = 11245183 sra ファイルのダウンロード中... Completed: 29979K bytes transferred in 3 seconds (77272K bits/sec), in 1 file. Completed: 222499K bytes transferred in 5 seconds (335129K 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 640382 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669625/SRR7818218.sra Written 640382 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669625/SRR7818218.sra Read 5977919 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669625/SRR7818219.sra Written 5977919 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669625/SRR7818219.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: 00:04:43 6618301 reads; of these: 6618301 (100.00%) were paired; of these: 686293 (10.37%) aligned concordantly 0 times 5261038 (79.49%) aligned concordantly exactly 1 time 670970 (10.14%) aligned concordantly >1 times ---- 686293 pairs aligned concordantly 0 times; of these: 22755 (3.32%) aligned discordantly 1 time ---- 663538 pairs aligned 0 times concordantly or discordantly; of these: 1327076 mates make up the pairs; of these: 1083718 (81.66%) aligned 0 times 172169 (12.97%) aligned exactly 1 time 71189 (5.36%) aligned >1 times 91.81% overall alignment rate Time searching: 00:04:43 Overall time: 00:04:43 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] 1059229 / 5951489 = 0.1780 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 @ Tue, 09 Oct 2018 23:52:00: # Command line: callpeak -t SRX4669625.bam -f BAM -g 12100000 -n SRX4669625.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4669625.20 # format = BAM # ChIP-seq file = ['SRX4669625.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 @ Tue, 09 Oct 2018 23:52:00: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:52:00: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:52:00: # Command line: callpeak -t SRX4669625.bam -f BAM -g 12100000 -n SRX4669625.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4669625.05 # format = BAM # ChIP-seq file = ['SRX4669625.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 @ Tue, 09 Oct 2018 23:52:00: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:52:00: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:52:00: # Command line: callpeak -t SRX4669625.bam -f BAM -g 12100000 -n SRX4669625.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4669625.10 # format = BAM # ChIP-seq file = ['SRX4669625.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 @ Tue, 09 Oct 2018 23:52:00: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:52:00: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:52:06: 1000000 INFO @ Tue, 09 Oct 2018 23:52:06: 1000000 INFO @ Tue, 09 Oct 2018 23:52:08: 1000000 INFO @ Tue, 09 Oct 2018 23:52:13: 2000000 INFO @ Tue, 09 Oct 2018 23:52:13: 2000000 INFO @ Tue, 09 Oct 2018 23:52:15: 2000000 INFO @ Tue, 09 Oct 2018 23:52:19: 3000000 INFO @ Tue, 09 Oct 2018 23:52:19: 3000000 INFO @ Tue, 09 Oct 2018 23:52:23: 3000000 INFO @ Tue, 09 Oct 2018 23:52:25: 4000000 INFO @ Tue, 09 Oct 2018 23:52:25: 4000000 INFO @ Tue, 09 Oct 2018 23:52:31: 4000000 INFO @ Tue, 09 Oct 2018 23:52:32: 5000000 INFO @ Tue, 09 Oct 2018 23:52:32: 5000000 INFO @ Tue, 09 Oct 2018 23:52:38: 6000000 INFO @ Tue, 09 Oct 2018 23:52:38: 6000000 INFO @ Tue, 09 Oct 2018 23:52:39: 5000000 INFO @ Tue, 09 Oct 2018 23:52:45: 7000000 INFO @ Tue, 09 Oct 2018 23:52:45: 7000000 INFO @ Tue, 09 Oct 2018 23:52:47: 6000000 INFO @ Tue, 09 Oct 2018 23:52:51: 8000000 INFO @ Tue, 09 Oct 2018 23:52:51: 8000000 INFO @ Tue, 09 Oct 2018 23:52:55: 7000000 INFO @ Tue, 09 Oct 2018 23:52:58: 9000000 INFO @ Tue, 09 Oct 2018 23:52:58: 9000000 INFO @ Tue, 09 Oct 2018 23:53:03: 8000000 INFO @ Tue, 09 Oct 2018 23:53:04: 10000000 INFO @ Tue, 09 Oct 2018 23:53:04: 10000000 INFO @ Tue, 09 Oct 2018 23:53:04: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:53:04: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:53:04: #1 total tags in treatment: 4876432 INFO @ Tue, 09 Oct 2018 23:53:04: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:53:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:53:04: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:53:04: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:53:04: #1 total tags in treatment: 4876432 INFO @ Tue, 09 Oct 2018 23:53:04: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:53:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:53:04: #1 tags after filtering in treatment: 4056422 INFO @ Tue, 09 Oct 2018 23:53:04: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 09 Oct 2018 23:53:04: #1 finished! INFO @ Tue, 09 Oct 2018 23:53:04: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:53:04: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:53:04: #1 tags after filtering in treatment: 4056422 INFO @ Tue, 09 Oct 2018 23:53:04: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 09 Oct 2018 23:53:04: #1 finished! INFO @ Tue, 09 Oct 2018 23:53:04: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:53:04: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:53:05: #2 number of paired peaks: 28 WARNING @ Tue, 09 Oct 2018 23:53:05: Too few paired peaks (28) 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 @ Tue, 09 Oct 2018 23:53:05: Process for pairing-model is terminated! INFO @ Tue, 09 Oct 2018 23:53:05: #2 number of paired peaks: 28 WARNING @ Tue, 09 Oct 2018 23:53:05: Too few paired peaks (28) 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 @ Tue, 09 Oct 2018 23:53:05: Process for pairing-model is terminated! cat: SRX4669625.05_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: SRX4669625.20_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 `SRX4669625.05_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 `SRX4669625.05_*.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 `SRX4669625.05_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4669625.20_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 `SRX4669625.20_*.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 `SRX4669625.20_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 @ Tue, 09 Oct 2018 23:53:09: 9000000 INFO @ Tue, 09 Oct 2018 23:53:15: 10000000 INFO @ Tue, 09 Oct 2018 23:53:15: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:53:15: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:53:15: #1 total tags in treatment: 4876432 INFO @ Tue, 09 Oct 2018 23:53:15: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:53:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:53:16: #1 tags after filtering in treatment: 4056422 INFO @ Tue, 09 Oct 2018 23:53:16: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 09 Oct 2018 23:53:16: #1 finished! INFO @ Tue, 09 Oct 2018 23:53:16: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:53:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:53:16: #2 number of paired peaks: 28 WARNING @ Tue, 09 Oct 2018 23:53:16: Too few paired peaks (28) 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 @ Tue, 09 Oct 2018 23:53:16: Process for pairing-model is terminated! cat: SRX4669625.10_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 `SRX4669625.10_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 `SRX4669625.10_*.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 `SRX4669625.10_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。