Job ID = 11245172 sra ファイルのダウンロード中... Completed: 26727K bytes transferred in 3 seconds (69245K bits/sec), in 1 file. Completed: 242615K bytes transferred in 5 seconds (338671K 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 572011 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669617/SRR7818202.sra Written 572011 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669617/SRR7818202.sra Read 6578940 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669617/SRR7818203.sra Written 6578940 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669617/SRR7818203.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: 00:05:24 7150951 reads; of these: 7150951 (100.00%) were paired; of these: 774053 (10.82%) aligned concordantly 0 times 5732528 (80.16%) aligned concordantly exactly 1 time 644370 (9.01%) aligned concordantly >1 times ---- 774053 pairs aligned concordantly 0 times; of these: 31508 (4.07%) aligned discordantly 1 time ---- 742545 pairs aligned 0 times concordantly or discordantly; of these: 1485090 mates make up the pairs; of these: 1188580 (80.03%) aligned 0 times 210562 (14.18%) aligned exactly 1 time 85948 (5.79%) aligned >1 times 91.69% overall alignment rate Time searching: 00:05:24 Overall time: 00:05:24 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] 1326429 / 6403476 = 0.2071 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 23:50:06: # Command line: callpeak -t SRX4669617.bam -f BAM -g 12100000 -n SRX4669617.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4669617.05 # format = BAM # ChIP-seq file = ['SRX4669617.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 23:50:06: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:50:06: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:50:06: # Command line: callpeak -t SRX4669617.bam -f BAM -g 12100000 -n SRX4669617.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4669617.20 # format = BAM # ChIP-seq file = ['SRX4669617.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 23:50:06: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:50:06: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:50:06: # Command line: callpeak -t SRX4669617.bam -f BAM -g 12100000 -n SRX4669617.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4669617.10 # format = BAM # ChIP-seq file = ['SRX4669617.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 23:50:06: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:50:06: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:50:14: 1000000 INFO @ Tue, 09 Oct 2018 23:50:14: 1000000 INFO @ Tue, 09 Oct 2018 23:50:15: 1000000 INFO @ Tue, 09 Oct 2018 23:50:22: 2000000 INFO @ Tue, 09 Oct 2018 23:50:22: 2000000 INFO @ Tue, 09 Oct 2018 23:50:24: 2000000 INFO @ Tue, 09 Oct 2018 23:50:30: 3000000 INFO @ Tue, 09 Oct 2018 23:50:30: 3000000 INFO @ Tue, 09 Oct 2018 23:50:32: 3000000 INFO @ Tue, 09 Oct 2018 23:50:38: 4000000 INFO @ Tue, 09 Oct 2018 23:50:38: 4000000 INFO @ Tue, 09 Oct 2018 23:50:41: 4000000 INFO @ Tue, 09 Oct 2018 23:50:47: 5000000 INFO @ Tue, 09 Oct 2018 23:50:47: 5000000 INFO @ Tue, 09 Oct 2018 23:50:50: 5000000 INFO @ Tue, 09 Oct 2018 23:50:55: 6000000 INFO @ Tue, 09 Oct 2018 23:50:55: 6000000 INFO @ Tue, 09 Oct 2018 23:50:59: 6000000 INFO @ Tue, 09 Oct 2018 23:51:02: 7000000 INFO @ Tue, 09 Oct 2018 23:51:02: 7000000 INFO @ Tue, 09 Oct 2018 23:51:06: 7000000 INFO @ Tue, 09 Oct 2018 23:51:09: 8000000 INFO @ Tue, 09 Oct 2018 23:51:09: 8000000 INFO @ Tue, 09 Oct 2018 23:51:13: 8000000 INFO @ Tue, 09 Oct 2018 23:51:16: 9000000 INFO @ Tue, 09 Oct 2018 23:51:16: 9000000 INFO @ Tue, 09 Oct 2018 23:51:20: 9000000 INFO @ Tue, 09 Oct 2018 23:51:23: 10000000 INFO @ Tue, 09 Oct 2018 23:51:23: 10000000 INFO @ Tue, 09 Oct 2018 23:51:26: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:51:26: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:51:26: #1 total tags in treatment: 5056321 INFO @ Tue, 09 Oct 2018 23:51:26: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:51:26: #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 23:51:26: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:51:26: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:51:26: #1 total tags in treatment: 5056321 INFO @ Tue, 09 Oct 2018 23:51:26: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:51:26: #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 23:51:26: #1 tags after filtering in treatment: 4228853 INFO @ Tue, 09 Oct 2018 23:51:26: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 09 Oct 2018 23:51:26: #1 finished! INFO @ Tue, 09 Oct 2018 23:51:26: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:51:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:51:26: #1 tags after filtering in treatment: 4228853 INFO @ Tue, 09 Oct 2018 23:51:26: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 09 Oct 2018 23:51:26: #1 finished! INFO @ Tue, 09 Oct 2018 23:51:26: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:51:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:51:26: #2 number of paired peaks: 29 WARNING @ Tue, 09 Oct 2018 23:51:26: Too few paired peaks (29) 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 23:51:26: Process for pairing-model is terminated! INFO @ Tue, 09 Oct 2018 23:51:26: #2 number of paired peaks: 29 WARNING @ Tue, 09 Oct 2018 23:51:26: Too few paired peaks (29) 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 23:51:26: Process for pairing-model is terminated! cat: SRX4669617.20_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 cat: SRX4669617.05_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) rm: cannot remove `SRX4669617.20_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 `SRX4669617.20_*.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 `SRX4669617.20_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4669617.05_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 `SRX4669617.05_*.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 `SRX4669617.05_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 23:51:27: 10000000 INFO @ Tue, 09 Oct 2018 23:51:30: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:51:30: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:51:30: #1 total tags in treatment: 5056321 INFO @ Tue, 09 Oct 2018 23:51:30: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:51:30: #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 23:51:30: #1 tags after filtering in treatment: 4228853 INFO @ Tue, 09 Oct 2018 23:51:30: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 09 Oct 2018 23:51:30: #1 finished! INFO @ Tue, 09 Oct 2018 23:51:30: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:51:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:51:30: #2 number of paired peaks: 29 WARNING @ Tue, 09 Oct 2018 23:51:30: Too few paired peaks (29) 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 23:51:30: Process for pairing-model is terminated! cat: SRX4669617.10_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): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4669617.10_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 `SRX4669617.10_*.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 `SRX4669617.10_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。