Job ID = 11245150 sra ファイルのダウンロード中... Completed: 23877K bytes transferred in 3 seconds (62234K bits/sec), in 1 file. Completed: 179497K bytes transferred in 4 seconds (300820K 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 501876 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669599/SRR7818178.sra Written 501876 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669599/SRR7818178.sra Read 4682529 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669599/SRR7818179.sra Written 4682529 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669599/SRR7818179.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: 00:04:14 5184405 reads; of these: 5184405 (100.00%) were paired; of these: 445629 (8.60%) aligned concordantly 0 times 4030362 (77.74%) aligned concordantly exactly 1 time 708414 (13.66%) aligned concordantly >1 times ---- 445629 pairs aligned concordantly 0 times; of these: 15112 (3.39%) aligned discordantly 1 time ---- 430517 pairs aligned 0 times concordantly or discordantly; of these: 861034 mates make up the pairs; of these: 733721 (85.21%) aligned 0 times 70166 (8.15%) aligned exactly 1 time 57147 (6.64%) aligned >1 times 92.92% overall alignment rate Time searching: 00:04:14 Overall time: 00:04:14 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] 780402 / 4750690 = 0.1643 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 23:41:44: # Command line: callpeak -t SRX4669599.bam -f BAM -g 12100000 -n SRX4669599.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4669599.10 # format = BAM # ChIP-seq file = ['SRX4669599.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 23:41:44: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:41:44: # Command line: callpeak -t SRX4669599.bam -f BAM -g 12100000 -n SRX4669599.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4669599.05 # format = BAM # ChIP-seq file = ['SRX4669599.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 23:41:44: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:41:44: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:41:44: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:41:44: # Command line: callpeak -t SRX4669599.bam -f BAM -g 12100000 -n SRX4669599.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4669599.20 # format = BAM # ChIP-seq file = ['SRX4669599.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 23:41:44: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:41:44: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:41:52: 1000000 INFO @ Tue, 09 Oct 2018 23:41:52: 1000000 INFO @ Tue, 09 Oct 2018 23:41:53: 1000000 INFO @ Tue, 09 Oct 2018 23:41:59: 2000000 INFO @ Tue, 09 Oct 2018 23:41:59: 2000000 INFO @ Tue, 09 Oct 2018 23:42:02: 2000000 INFO @ Tue, 09 Oct 2018 23:42:06: 3000000 INFO @ Tue, 09 Oct 2018 23:42:06: 3000000 INFO @ Tue, 09 Oct 2018 23:42:10: 3000000 INFO @ Tue, 09 Oct 2018 23:42:13: 4000000 INFO @ Tue, 09 Oct 2018 23:42:13: 4000000 INFO @ Tue, 09 Oct 2018 23:42:19: 4000000 INFO @ Tue, 09 Oct 2018 23:42:19: 5000000 INFO @ Tue, 09 Oct 2018 23:42:19: 5000000 INFO @ Tue, 09 Oct 2018 23:42:26: 6000000 INFO @ Tue, 09 Oct 2018 23:42:26: 6000000 INFO @ Tue, 09 Oct 2018 23:42:28: 5000000 INFO @ Tue, 09 Oct 2018 23:42:33: 7000000 INFO @ Tue, 09 Oct 2018 23:42:33: 7000000 INFO @ Tue, 09 Oct 2018 23:42:36: 6000000 INFO @ Tue, 09 Oct 2018 23:42:40: 8000000 INFO @ Tue, 09 Oct 2018 23:42:40: 8000000 INFO @ Tue, 09 Oct 2018 23:42:41: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:42:41: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:42:41: #1 total tags in treatment: 3960604 INFO @ Tue, 09 Oct 2018 23:42:41: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:42:41: #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 23:42:41: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:42:41: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:42:41: #1 total tags in treatment: 3960604 INFO @ Tue, 09 Oct 2018 23:42:41: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:42:41: #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 23:42:41: #1 tags after filtering in treatment: 3273068 INFO @ Tue, 09 Oct 2018 23:42:41: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 09 Oct 2018 23:42:41: #1 finished! INFO @ Tue, 09 Oct 2018 23:42:41: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:42:41: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:42:41: #1 tags after filtering in treatment: 3273068 INFO @ Tue, 09 Oct 2018 23:42:41: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 09 Oct 2018 23:42:41: #1 finished! INFO @ Tue, 09 Oct 2018 23:42:41: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:42:41: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:42:41: #2 number of paired peaks: 34 WARNING @ Tue, 09 Oct 2018 23:42:41: 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 23:42:41: Process for pairing-model is terminated! cat: SRX4669599.10_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 @ Tue, 09 Oct 2018 23:42:41: #2 number of paired peaks: 34 WARNING @ Tue, 09 Oct 2018 23:42:41: 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 23:42:41: Process for pairing-model is terminated! cat: SRX4669599.05_peaks.narrowPeakpass1 - making usageList (0 chroms): 1 millis : 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) rm: cannot remove `SRX4669599.10_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 `SRX4669599.10_*.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 `SRX4669599.10_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4669599.05_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 `SRX4669599.05_*.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 `SRX4669599.05_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 23:42:45: 7000000 INFO @ Tue, 09 Oct 2018 23:42:54: 8000000 INFO @ Tue, 09 Oct 2018 23:42:54: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:42:54: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:42:54: #1 total tags in treatment: 3960604 INFO @ Tue, 09 Oct 2018 23:42:54: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:42:54: #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 23:42:54: #1 tags after filtering in treatment: 3273068 INFO @ Tue, 09 Oct 2018 23:42:54: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 09 Oct 2018 23:42:54: #1 finished! INFO @ Tue, 09 Oct 2018 23:42:54: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:42:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:42:55: #2 number of paired peaks: 34 WARNING @ Tue, 09 Oct 2018 23:42:55: 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 @ Tue, 09 Oct 2018 23:42:55: Process for pairing-model is terminated! cat: SRX4669599.20_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 `SRX4669599.20_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 `SRX4669599.20_*.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 `SRX4669599.20_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。