Job ID = 11245186 sra ファイルのダウンロード中... Completed: 26951K bytes transferred in 3 seconds (71502K bits/sec), in 1 file. Completed: 189219K bytes transferred in 5 seconds (286485K 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 559473 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669627/SRR7818222.sra Written 559473 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669627/SRR7818222.sra Read 4942381 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669627/SRR7818223.sra Written 4942381 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669627/SRR7818223.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: 00:04:10 5501854 reads; of these: 5501854 (100.00%) were paired; of these: 580640 (10.55%) aligned concordantly 0 times 4349841 (79.06%) aligned concordantly exactly 1 time 571373 (10.39%) aligned concordantly >1 times ---- 580640 pairs aligned concordantly 0 times; of these: 21963 (3.78%) aligned discordantly 1 time ---- 558677 pairs aligned 0 times concordantly or discordantly; of these: 1117354 mates make up the pairs; of these: 864508 (77.37%) aligned 0 times 182709 (16.35%) aligned exactly 1 time 70137 (6.28%) aligned >1 times 92.14% overall alignment rate Time searching: 00:04:10 Overall time: 00:04:10 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] 758249 / 4940024 = 0.1535 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 23:51:23: # Command line: callpeak -t SRX4669627.bam -f BAM -g 12100000 -n SRX4669627.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4669627.05 # format = BAM # ChIP-seq file = ['SRX4669627.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 23:51:23: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:51:23: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:51:23: # Command line: callpeak -t SRX4669627.bam -f BAM -g 12100000 -n SRX4669627.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4669627.20 # format = BAM # ChIP-seq file = ['SRX4669627.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 23:51:23: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:51:23: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:51:23: # Command line: callpeak -t SRX4669627.bam -f BAM -g 12100000 -n SRX4669627.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4669627.10 # format = BAM # ChIP-seq file = ['SRX4669627.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 23:51:23: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:51:23: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:51:31: 1000000 INFO @ Tue, 09 Oct 2018 23:51:32: 1000000 INFO @ Tue, 09 Oct 2018 23:51:32: 1000000 INFO @ Tue, 09 Oct 2018 23:51:39: 2000000 INFO @ Tue, 09 Oct 2018 23:51:40: 2000000 INFO @ Tue, 09 Oct 2018 23:51:40: 2000000 INFO @ Tue, 09 Oct 2018 23:51:46: 3000000 INFO @ Tue, 09 Oct 2018 23:51:48: 3000000 INFO @ Tue, 09 Oct 2018 23:51:48: 3000000 INFO @ Tue, 09 Oct 2018 23:51:54: 4000000 INFO @ Tue, 09 Oct 2018 23:51:56: 4000000 INFO @ Tue, 09 Oct 2018 23:51:56: 4000000 INFO @ Tue, 09 Oct 2018 23:52:02: 5000000 INFO @ Tue, 09 Oct 2018 23:52:04: 5000000 INFO @ Tue, 09 Oct 2018 23:52:04: 5000000 INFO @ Tue, 09 Oct 2018 23:52:09: 6000000 INFO @ Tue, 09 Oct 2018 23:52:13: 6000000 INFO @ Tue, 09 Oct 2018 23:52:13: 6000000 INFO @ Tue, 09 Oct 2018 23:52:16: 7000000 INFO @ Tue, 09 Oct 2018 23:52:19: 7000000 INFO @ Tue, 09 Oct 2018 23:52:19: 7000000 INFO @ Tue, 09 Oct 2018 23:52:23: 8000000 INFO @ Tue, 09 Oct 2018 23:52:26: 8000000 INFO @ Tue, 09 Oct 2018 23:52:26: 8000000 INFO @ Tue, 09 Oct 2018 23:52:27: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:52:27: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:52:27: #1 total tags in treatment: 4165963 INFO @ Tue, 09 Oct 2018 23:52:27: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:52:27: #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 23:52:27: #1 tags after filtering in treatment: 3488480 INFO @ Tue, 09 Oct 2018 23:52:27: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 09 Oct 2018 23:52:27: #1 finished! INFO @ Tue, 09 Oct 2018 23:52:27: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:52:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:52:27: #2 number of paired peaks: 40 WARNING @ Tue, 09 Oct 2018 23:52:27: Too few paired peaks (40) 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 23:52:27: Process for pairing-model is terminated! cat: SRX4669627.05_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 `SRX4669627.05_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 `SRX4669627.05_*.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 `SRX4669627.05_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 23:52:29: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:52:29: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:52:29: #1 total tags in treatment: 4165963 INFO @ Tue, 09 Oct 2018 23:52:29: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:52:29: #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 23:52:29: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:52:29: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:52:29: #1 total tags in treatment: 4165963 INFO @ Tue, 09 Oct 2018 23:52:29: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:52:29: #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 23:52:30: #1 tags after filtering in treatment: 3488480 INFO @ Tue, 09 Oct 2018 23:52:30: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 09 Oct 2018 23:52:30: #1 finished! INFO @ Tue, 09 Oct 2018 23:52:30: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:52:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:52:30: #1 tags after filtering in treatment: 3488480 INFO @ Tue, 09 Oct 2018 23:52:30: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 09 Oct 2018 23:52:30: #1 finished! INFO @ Tue, 09 Oct 2018 23:52:30: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:52:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:52:30: #2 number of paired peaks: 40 WARNING @ Tue, 09 Oct 2018 23:52:30: Too few paired peaks (40) 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 23:52:30: Process for pairing-model is terminated! INFO @ Tue, 09 Oct 2018 23:52:30: #2 number of paired peaks: 40 WARNING @ Tue, 09 Oct 2018 23:52:30: Too few paired peaks (40) 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 23:52:30: Process for pairing-model is terminated! cat: SRX4669627.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX4669627.10_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 `SRX4669627.20_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 `SRX4669627.20_*.xls'pass1 - making usageList (0 chroms): そのようなファイルやディレクトリはありません: 1 millis rm: cannot remove `SRX4669627.20_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 needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4669627.10_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 `SRX4669627.10_*.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 `SRX4669627.10_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。