Job ID = 11245179 sra ファイルのダウンロード中... Completed: 26113K bytes transferred in 3 seconds (68067K bits/sec), in 1 file. Completed: 208340K bytes transferred in 5 seconds (310641K 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 556104 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669622/SRR7818212.sra Written 556104 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669622/SRR7818212.sra Read 5617310 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669622/SRR7818213.sra Written 5617310 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669622/SRR7818213.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: 00:04:40 6173414 reads; of these: 6173414 (100.00%) were paired; of these: 651119 (10.55%) aligned concordantly 0 times 4935482 (79.95%) aligned concordantly exactly 1 time 586813 (9.51%) aligned concordantly >1 times ---- 651119 pairs aligned concordantly 0 times; of these: 27421 (4.21%) aligned discordantly 1 time ---- 623698 pairs aligned 0 times concordantly or discordantly; of these: 1247396 mates make up the pairs; of these: 1004188 (80.50%) aligned 0 times 168894 (13.54%) aligned exactly 1 time 74314 (5.96%) aligned >1 times 91.87% overall alignment rate Time searching: 00:04:40 Overall time: 00:04:40 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] 995901 / 5545930 = 0.1796 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 23:50:55: # Command line: callpeak -t SRX4669622.bam -f BAM -g 12100000 -n SRX4669622.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4669622.20 # format = BAM # ChIP-seq file = ['SRX4669622.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 23:50:55: # Command line: callpeak -t SRX4669622.bam -f BAM -g 12100000 -n SRX4669622.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4669622.10 # format = BAM # ChIP-seq file = ['SRX4669622.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 23:50:55: # Command line: callpeak -t SRX4669622.bam -f BAM -g 12100000 -n SRX4669622.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4669622.05 # format = BAM # ChIP-seq file = ['SRX4669622.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 23:50:55: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:50:55: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:50:55: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:50:55: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:50:55: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:50:55: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:51:03: 1000000 INFO @ Tue, 09 Oct 2018 23:51:03: 1000000 INFO @ Tue, 09 Oct 2018 23:51:03: 1000000 INFO @ Tue, 09 Oct 2018 23:51:11: 2000000 INFO @ Tue, 09 Oct 2018 23:51:11: 2000000 INFO @ Tue, 09 Oct 2018 23:51:12: 2000000 INFO @ Tue, 09 Oct 2018 23:51:18: 3000000 INFO @ Tue, 09 Oct 2018 23:51:18: 3000000 INFO @ Tue, 09 Oct 2018 23:51:23: 3000000 INFO @ Tue, 09 Oct 2018 23:51:25: 4000000 INFO @ Tue, 09 Oct 2018 23:51:25: 4000000 INFO @ Tue, 09 Oct 2018 23:51:32: 5000000 INFO @ Tue, 09 Oct 2018 23:51:32: 5000000 INFO @ Tue, 09 Oct 2018 23:51:33: 4000000 INFO @ Tue, 09 Oct 2018 23:51:39: 6000000 INFO @ Tue, 09 Oct 2018 23:51:39: 6000000 INFO @ Tue, 09 Oct 2018 23:51:42: 5000000 INFO @ Tue, 09 Oct 2018 23:51:47: 7000000 INFO @ Tue, 09 Oct 2018 23:51:47: 7000000 INFO @ Tue, 09 Oct 2018 23:51:51: 6000000 INFO @ Tue, 09 Oct 2018 23:51:54: 8000000 INFO @ Tue, 09 Oct 2018 23:51:54: 8000000 INFO @ Tue, 09 Oct 2018 23:51:59: 7000000 INFO @ Tue, 09 Oct 2018 23:52:01: 9000000 INFO @ Tue, 09 Oct 2018 23:52:01: 9000000 INFO @ Tue, 09 Oct 2018 23:52:03: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:52:03: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:52:03: #1 total tags in treatment: 4530924 INFO @ Tue, 09 Oct 2018 23:52:03: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:52:03: #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 23:52:03: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:52:03: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:52:03: #1 total tags in treatment: 4530924 INFO @ Tue, 09 Oct 2018 23:52:03: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:52:03: #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 23:52:03: #1 tags after filtering in treatment: 3829760 INFO @ Tue, 09 Oct 2018 23:52:03: #1 Redundant rate of treatment: 0.15 INFO @ Tue, 09 Oct 2018 23:52:03: #1 finished! INFO @ Tue, 09 Oct 2018 23:52:03: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:52:03: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:52:03: #1 tags after filtering in treatment: 3829760 INFO @ Tue, 09 Oct 2018 23:52:03: #1 Redundant rate of treatment: 0.15 INFO @ Tue, 09 Oct 2018 23:52:03: #1 finished! INFO @ Tue, 09 Oct 2018 23:52:03: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:52:03: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:52:04: #2 number of paired peaks: 34 WARNING @ Tue, 09 Oct 2018 23:52:04: Too few paired peaks (34) 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 23:52:04: Process for pairing-model is terminated! cat: SRX4669622.05_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): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4669622.05_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 `SRX4669622.05_*.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 `SRX4669622.05_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 @ Tue, 09 Oct 2018 23:52:04: #2 number of paired peaks: 34 WARNING @ Tue, 09 Oct 2018 23:52:04: Too few paired peaks (34) 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 23:52:04: Process for pairing-model is terminated! cat: SRX4669622.10_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 `SRX4669622.10_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 `SRX4669622.10_*.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 `SRX4669622.10_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 @ Tue, 09 Oct 2018 23:52:07: 8000000 INFO @ Tue, 09 Oct 2018 23:52:14: 9000000 INFO @ Tue, 09 Oct 2018 23:52:16: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:52:16: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:52:16: #1 total tags in treatment: 4530924 INFO @ Tue, 09 Oct 2018 23:52:16: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:52:16: #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 23:52:17: #1 tags after filtering in treatment: 3829760 INFO @ Tue, 09 Oct 2018 23:52:17: #1 Redundant rate of treatment: 0.15 INFO @ Tue, 09 Oct 2018 23:52:17: #1 finished! INFO @ Tue, 09 Oct 2018 23:52:17: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:52:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:52:17: #2 number of paired peaks: 34 WARNING @ Tue, 09 Oct 2018 23:52:17: Too few paired peaks (34) 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 23:52:17: Process for pairing-model is terminated! cat: SRX4669622.20_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 `SRX4669622.20_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 `SRX4669622.20_*.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 `SRX4669622.20_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。