Job ID = 11245189 sra ファイルのダウンロード中... Completed: 25615K bytes transferred in 3 seconds (67109K bits/sec), in 1 file. Completed: 184558K bytes transferred in 4 seconds (313980K 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 544809 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669629/SRR7818226.sra Written 544809 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669629/SRR7818226.sra Read 4936003 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669629/SRR7818227.sra Written 4936003 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669629/SRR7818227.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: 00:04:06 5480812 reads; of these: 5480812 (100.00%) were paired; of these: 520628 (9.50%) aligned concordantly 0 times 4328692 (78.98%) aligned concordantly exactly 1 time 631492 (11.52%) aligned concordantly >1 times ---- 520628 pairs aligned concordantly 0 times; of these: 21944 (4.21%) aligned discordantly 1 time ---- 498684 pairs aligned 0 times concordantly or discordantly; of these: 997368 mates make up the pairs; of these: 781002 (78.31%) aligned 0 times 151448 (15.18%) aligned exactly 1 time 64918 (6.51%) aligned >1 times 92.88% overall alignment rate Time searching: 00:04:06 Overall time: 00:04:06 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] 824487 / 4979038 = 0.1656 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 23:51:49: # Command line: callpeak -t SRX4669629.bam -f BAM -g 12100000 -n SRX4669629.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4669629.10 # format = BAM # ChIP-seq file = ['SRX4669629.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 23:51:49: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:51:49: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:51:49: # Command line: callpeak -t SRX4669629.bam -f BAM -g 12100000 -n SRX4669629.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4669629.20 # format = BAM # ChIP-seq file = ['SRX4669629.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 23:51:49: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:51:49: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:51:49: # Command line: callpeak -t SRX4669629.bam -f BAM -g 12100000 -n SRX4669629.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4669629.05 # format = BAM # ChIP-seq file = ['SRX4669629.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 23:51:49: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:51:49: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:51:55: 1000000 INFO @ Tue, 09 Oct 2018 23:51:55: 1000000 INFO @ Tue, 09 Oct 2018 23:51:55: 1000000 INFO @ Tue, 09 Oct 2018 23:52:01: 2000000 INFO @ Tue, 09 Oct 2018 23:52:01: 2000000 INFO @ Tue, 09 Oct 2018 23:52:01: 2000000 INFO @ Tue, 09 Oct 2018 23:52:06: 3000000 INFO @ Tue, 09 Oct 2018 23:52:08: 3000000 INFO @ Tue, 09 Oct 2018 23:52:08: 3000000 INFO @ Tue, 09 Oct 2018 23:52:12: 4000000 INFO @ Tue, 09 Oct 2018 23:52:14: 4000000 INFO @ Tue, 09 Oct 2018 23:52:14: 4000000 INFO @ Tue, 09 Oct 2018 23:52:18: 5000000 INFO @ Tue, 09 Oct 2018 23:52:20: 5000000 INFO @ Tue, 09 Oct 2018 23:52:20: 5000000 INFO @ Tue, 09 Oct 2018 23:52:24: 6000000 INFO @ Tue, 09 Oct 2018 23:52:26: 6000000 INFO @ Tue, 09 Oct 2018 23:52:26: 6000000 INFO @ Tue, 09 Oct 2018 23:52:30: 7000000 INFO @ Tue, 09 Oct 2018 23:52:32: 7000000 INFO @ Tue, 09 Oct 2018 23:52:32: 7000000 INFO @ Tue, 09 Oct 2018 23:52:35: 8000000 INFO @ Tue, 09 Oct 2018 23:52:38: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:52:38: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:52:38: #1 total tags in treatment: 4138986 INFO @ Tue, 09 Oct 2018 23:52:38: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:52:38: #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 23:52:39: #1 tags after filtering in treatment: 3455615 INFO @ Tue, 09 Oct 2018 23:52:39: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 09 Oct 2018 23:52:39: #1 finished! INFO @ Tue, 09 Oct 2018 23:52:39: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:52:39: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:52:39: 8000000 INFO @ Tue, 09 Oct 2018 23:52:39: 8000000 INFO @ Tue, 09 Oct 2018 23:52:39: #2 number of paired peaks: 33 WARNING @ Tue, 09 Oct 2018 23:52:39: Too few paired peaks (33) 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 23:52:39: Process for pairing-model is terminated! cat: SRX4669629.20_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): 7 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4669629.20_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 `SRX4669629.20_*.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 `SRX4669629.20_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 23:52:42: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:52:42: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:52:42: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:52:42: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:52:42: #1 total tags in treatment: 4138986 INFO @ Tue, 09 Oct 2018 23:52:42: #1 total tags in treatment: 4138986 INFO @ Tue, 09 Oct 2018 23:52:42: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:52:42: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:52:42: #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 23:52:42: #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 23:52:42: #1 tags after filtering in treatment: 3455615 INFO @ Tue, 09 Oct 2018 23:52:42: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 09 Oct 2018 23:52:42: #1 tags after filtering in treatment: 3455615 INFO @ Tue, 09 Oct 2018 23:52:42: #1 finished! INFO @ Tue, 09 Oct 2018 23:52:42: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 09 Oct 2018 23:52:42: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:52:42: #1 finished! INFO @ Tue, 09 Oct 2018 23:52:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:52:42: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:52:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:52:42: #2 number of paired peaks: 33 WARNING @ Tue, 09 Oct 2018 23:52:42: Too few paired peaks (33) 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 23:52:42: Process for pairing-model is terminated! INFO @ Tue, 09 Oct 2018 23:52:42: #2 number of paired peaks: 33 WARNING @ Tue, 09 Oct 2018 23:52:42: Too few paired peaks (33) 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 23:52:42: Process for pairing-model is terminated! cat: SRX4669629.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX4669629.05_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): 0 millis pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4669629.10_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 `SRX4669629.05_model.r'rm: cannot remove `SRX4669629.10_*.xls': そのようなファイルやディレクトリはありません: 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 `SRX4669629.05_*.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 `SRX4669629.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4669629.05_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 CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。