Job ID = 11633120 sra ファイルのダウンロード中... Completed: 235948K bytes transferred in 5 seconds (323809K 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 4000000 spots for /home/okishinya/chipatlas/results/sacCer3/ERX1174056/ERR1094570.sra Written 4000000 spots for /home/okishinya/chipatlas/results/sacCer3/ERX1174056/ERR1094570.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 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: 00:03:03 4000000 reads; of these: 4000000 (100.00%) were paired; of these: 187473 (4.69%) aligned concordantly 0 times 3576685 (89.42%) aligned concordantly exactly 1 time 235842 (5.90%) aligned concordantly >1 times ---- 187473 pairs aligned concordantly 0 times; of these: 108503 (57.88%) aligned discordantly 1 time ---- 78970 pairs aligned 0 times concordantly or discordantly; of these: 157940 mates make up the pairs; of these: 125758 (79.62%) aligned 0 times 15528 (9.83%) aligned exactly 1 time 16654 (10.54%) aligned >1 times 98.43% overall alignment rate Time searching: 00:03:03 Overall time: 00:03:03 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] 19081 / 3914754 = 0.0049 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, 15 Feb 2019 08:25:17: # Command line: callpeak -t ERX1174056.bam -f BAM -g 12100000 -n ERX1174056.10 -q 1e-10 # ARGUMENTS LIST: # name = ERX1174056.10 # format = BAM # ChIP-seq file = ['ERX1174056.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, 15 Feb 2019 08:25:17: #1 read tag files... INFO @ Fri, 15 Feb 2019 08:25:17: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 08:25:17: # Command line: callpeak -t ERX1174056.bam -f BAM -g 12100000 -n ERX1174056.05 -q 1e-05 # ARGUMENTS LIST: # name = ERX1174056.05 # format = BAM # ChIP-seq file = ['ERX1174056.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, 15 Feb 2019 08:25:17: #1 read tag files... INFO @ Fri, 15 Feb 2019 08:25:17: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 08:25:17: # Command line: callpeak -t ERX1174056.bam -f BAM -g 12100000 -n ERX1174056.20 -q 1e-20 # ARGUMENTS LIST: # name = ERX1174056.20 # format = BAM # ChIP-seq file = ['ERX1174056.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, 15 Feb 2019 08:25:17: #1 read tag files... INFO @ Fri, 15 Feb 2019 08:25:17: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 08:25:23: 1000000 INFO @ Fri, 15 Feb 2019 08:25:24: 1000000 INFO @ Fri, 15 Feb 2019 08:25:24: 1000000 INFO @ Fri, 15 Feb 2019 08:25:29: 2000000 INFO @ Fri, 15 Feb 2019 08:25:31: 2000000 INFO @ Fri, 15 Feb 2019 08:25:31: 2000000 INFO @ Fri, 15 Feb 2019 08:25:36: 3000000 INFO @ Fri, 15 Feb 2019 08:25:38: 3000000 INFO @ Fri, 15 Feb 2019 08:25:38: 3000000 INFO @ Fri, 15 Feb 2019 08:25:42: 4000000 INFO @ Fri, 15 Feb 2019 08:25:45: 4000000 INFO @ Fri, 15 Feb 2019 08:25:45: 4000000 INFO @ Fri, 15 Feb 2019 08:25:48: 5000000 INFO @ Fri, 15 Feb 2019 08:25:52: 5000000 INFO @ Fri, 15 Feb 2019 08:25:52: 5000000 INFO @ Fri, 15 Feb 2019 08:25:54: 6000000 INFO @ Fri, 15 Feb 2019 08:25:58: 6000000 INFO @ Fri, 15 Feb 2019 08:25:58: 6000000 INFO @ Fri, 15 Feb 2019 08:26:01: 7000000 INFO @ Fri, 15 Feb 2019 08:26:05: 7000000 INFO @ Fri, 15 Feb 2019 08:26:05: 7000000 INFO @ Fri, 15 Feb 2019 08:26:06: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 08:26:06: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 08:26:06: #1 total tags in treatment: 3793855 INFO @ Fri, 15 Feb 2019 08:26:06: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 08:26:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 08:26:06: #1 tags after filtering in treatment: 3440321 INFO @ Fri, 15 Feb 2019 08:26:06: #1 Redundant rate of treatment: 0.09 INFO @ Fri, 15 Feb 2019 08:26:06: #1 finished! INFO @ Fri, 15 Feb 2019 08:26:06: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 08:26:06: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 08:26:06: #2 number of paired peaks: 1 WARNING @ Fri, 15 Feb 2019 08:26:06: Too few paired peaks (1) 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, 15 Feb 2019 08:26:06: Process for pairing-model is terminated! cat: ERX1174056.10_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX1174056.10_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 `ERX1174056.10_*.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 `ERX1174056.10_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 @ Fri, 15 Feb 2019 08:26:11: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 08:26:11: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 08:26:11: #1 total tags in treatment: 3793855 INFO @ Fri, 15 Feb 2019 08:26:11: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 08:26:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 08:26:11: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 08:26:11: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 08:26:11: #1 total tags in treatment: 3793855 INFO @ Fri, 15 Feb 2019 08:26:11: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 08:26:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 08:26:11: #1 tags after filtering in treatment: 3440321 INFO @ Fri, 15 Feb 2019 08:26:11: #1 Redundant rate of treatment: 0.09 INFO @ Fri, 15 Feb 2019 08:26:11: #1 finished! INFO @ Fri, 15 Feb 2019 08:26:11: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 08:26:11: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 08:26:11: #1 tags after filtering in treatment: 3440321 INFO @ Fri, 15 Feb 2019 08:26:11: #1 Redundant rate of treatment: 0.09 INFO @ Fri, 15 Feb 2019 08:26:11: #1 finished! INFO @ Fri, 15 Feb 2019 08:26:11: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 08:26:11: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 08:26:11: #2 number of paired peaks: 1 WARNING @ Fri, 15 Feb 2019 08:26:11: Too few paired peaks (1) 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, 15 Feb 2019 08:26:11: Process for pairing-model is terminated! INFO @ Fri, 15 Feb 2019 08:26:11: #2 number of paired peaks: 1 WARNING @ Fri, 15 Feb 2019 08:26:11: Too few paired peaks (1) 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, 15 Feb 2019 08:26:11: Process for pairing-model is terminated! cat: ERX1174056.05_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: ERX1174056.20_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): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX1174056.05_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 `ERX1174056.05_*.xls': 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): 3 millis rm: cannot remove `ERX1174056.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling rm: cannot remove `ERX1174056.20_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 `ERX1174056.20_*.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 `ERX1174056.20_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。