Job ID = 11633245 sra ファイルのダウンロード中... Completed: 45865K bytes transferred in 3 seconds (103989K 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 745486 spots for /home/okishinya/chipatlas/results/sacCer3/ERX1174181/ERR1094695.sra Written 745486 spots for /home/okishinya/chipatlas/results/sacCer3/ERX1174181/ERR1094695.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: 00:00:31 745486 reads; of these: 745486 (100.00%) were paired; of these: 121935 (16.36%) aligned concordantly 0 times 569096 (76.34%) aligned concordantly exactly 1 time 54455 (7.30%) aligned concordantly >1 times ---- 121935 pairs aligned concordantly 0 times; of these: 6691 (5.49%) aligned discordantly 1 time ---- 115244 pairs aligned 0 times concordantly or discordantly; of these: 230488 mates make up the pairs; of these: 224768 (97.52%) aligned 0 times 3703 (1.61%) aligned exactly 1 time 2017 (0.88%) aligned >1 times 84.92% overall alignment rate Time searching: 00:00:31 Overall time: 00:00:31 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] 8104 / 629923 = 0.0129 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 08:33:46: # Command line: callpeak -t ERX1174181.bam -f BAM -g 12100000 -n ERX1174181.20 -q 1e-20 # ARGUMENTS LIST: # name = ERX1174181.20 # format = BAM # ChIP-seq file = ['ERX1174181.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 08:33:46: #1 read tag files... INFO @ Fri, 15 Feb 2019 08:33:46: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 08:33:46: # Command line: callpeak -t ERX1174181.bam -f BAM -g 12100000 -n ERX1174181.10 -q 1e-10 # ARGUMENTS LIST: # name = ERX1174181.10 # format = BAM # ChIP-seq file = ['ERX1174181.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 08:33:46: #1 read tag files... INFO @ Fri, 15 Feb 2019 08:33:46: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 08:33:46: # Command line: callpeak -t ERX1174181.bam -f BAM -g 12100000 -n ERX1174181.05 -q 1e-05 # ARGUMENTS LIST: # name = ERX1174181.05 # format = BAM # ChIP-seq file = ['ERX1174181.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 08:33:46: #1 read tag files... INFO @ Fri, 15 Feb 2019 08:33:46: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 08:33:53: 1000000 INFO @ Fri, 15 Feb 2019 08:33:53: 1000000 INFO @ Fri, 15 Feb 2019 08:33:53: 1000000 INFO @ Fri, 15 Feb 2019 08:33:54: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 08:33:54: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 08:33:54: #1 total tags in treatment: 615512 INFO @ Fri, 15 Feb 2019 08:33:54: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 08:33:54: #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 08:33:54: #1 tags after filtering in treatment: 601795 INFO @ Fri, 15 Feb 2019 08:33:54: #1 Redundant rate of treatment: 0.02 INFO @ Fri, 15 Feb 2019 08:33:54: #1 finished! INFO @ Fri, 15 Feb 2019 08:33:54: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 08:33:54: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 08:33:54: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 08:33:54: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 08:33:54: #1 total tags in treatment: 615512 INFO @ Fri, 15 Feb 2019 08:33:54: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 08:33:54: #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 08:33:54: #2 number of paired peaks: 34 WARNING @ Fri, 15 Feb 2019 08:33:54: 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 @ Fri, 15 Feb 2019 08:33:54: Process for pairing-model is terminated! INFO @ Fri, 15 Feb 2019 08:33:54: #1 tags after filtering in treatment: 601795 INFO @ Fri, 15 Feb 2019 08:33:54: #1 Redundant rate of treatment: 0.02 INFO @ Fri, 15 Feb 2019 08:33:54: #1 finished! INFO @ Fri, 15 Feb 2019 08:33:54: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 08:33:54: #2 looking for paired plus/minus strand peaks... cat: ERX1174181.10_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 `ERX1174181.10_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 `ERX1174181.10_*.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 `ERX1174181.10_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, 15 Feb 2019 08:33:54: #2 number of paired peaks: 34 WARNING @ Fri, 15 Feb 2019 08:33:54: 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 @ Fri, 15 Feb 2019 08:33:54: Process for pairing-model is terminated! CompletedMACS2peakCalling cat: ERX1174181.20_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX1174181.20_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 `ERX1174181.20_*.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 `ERX1174181.20_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 @ Fri, 15 Feb 2019 08:33:55: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 08:33:55: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 08:33:55: #1 total tags in treatment: 615512 INFO @ Fri, 15 Feb 2019 08:33:55: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 08:33:55: #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 08:33:55: #1 tags after filtering in treatment: 601795 INFO @ Fri, 15 Feb 2019 08:33:55: #1 Redundant rate of treatment: 0.02 INFO @ Fri, 15 Feb 2019 08:33:55: #1 finished! INFO @ Fri, 15 Feb 2019 08:33:55: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 08:33:55: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 08:33:55: #2 number of paired peaks: 34 WARNING @ Fri, 15 Feb 2019 08:33:55: 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 @ Fri, 15 Feb 2019 08:33:55: Process for pairing-model is terminated! cat: ERX1174181.05_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX1174181.05_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 `ERX1174181.05_*.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 `ERX1174181.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。