Job ID = 7100072 SRX = SRX6911513 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7413251 spots for SRR10191156/SRR10191156.sra Written 7413251 spots for SRR10191156/SRR10191156.sra 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: 00:07:51 7413251 reads; of these: 7413251 (100.00%) were paired; of these: 2947499 (39.76%) aligned concordantly 0 times 3153488 (42.54%) aligned concordantly exactly 1 time 1312264 (17.70%) aligned concordantly >1 times ---- 2947499 pairs aligned concordantly 0 times; of these: 537202 (18.23%) aligned discordantly 1 time ---- 2410297 pairs aligned 0 times concordantly or discordantly; of these: 4820594 mates make up the pairs; of these: 3856220 (79.99%) aligned 0 times 334895 (6.95%) aligned exactly 1 time 629479 (13.06%) aligned >1 times 73.99% overall alignment rate Time searching: 00:07:51 Overall time: 00:07:51 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] 1786164 / 5002431 = 0.3571 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 12:21:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.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 @ Wed, 22 Jul 2020 12:21:26: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:21:26: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:21:35: 1000000 INFO @ Wed, 22 Jul 2020 12:21:44: 2000000 INFO @ Wed, 22 Jul 2020 12:21:53: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 12:21:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.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 @ Wed, 22 Jul 2020 12:21:56: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:21:56: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:22:03: 4000000 INFO @ Wed, 22 Jul 2020 12:22:06: 1000000 INFO @ Wed, 22 Jul 2020 12:22:12: 5000000 INFO @ Wed, 22 Jul 2020 12:22:15: 2000000 INFO @ Wed, 22 Jul 2020 12:22:21: 6000000 INFO @ Wed, 22 Jul 2020 12:22:24: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 12:22:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.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 @ Wed, 22 Jul 2020 12:22:26: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:22:26: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:22:32: 7000000 INFO @ Wed, 22 Jul 2020 12:22:33: 4000000 INFO @ Wed, 22 Jul 2020 12:22:36: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:22:36: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:22:36: #1 total tags in treatment: 2813836 INFO @ Wed, 22 Jul 2020 12:22:36: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:22:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 12:22:36: #1 tags after filtering in treatment: 1698738 INFO @ Wed, 22 Jul 2020 12:22:36: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Jul 2020 12:22:36: #1 finished! INFO @ Wed, 22 Jul 2020 12:22:36: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:22:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:22:36: #2 number of paired peaks: 88 WARNING @ Wed, 22 Jul 2020 12:22:36: Too few paired peaks (88) 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 @ Wed, 22 Jul 2020 12:22:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 12:22:37: 1000000 INFO @ Wed, 22 Jul 2020 12:22:42: 5000000 INFO @ Wed, 22 Jul 2020 12:22:46: 2000000 INFO @ Wed, 22 Jul 2020 12:22:50: 6000000 INFO @ Wed, 22 Jul 2020 12:22:56: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 12:22:59: 7000000 INFO @ Wed, 22 Jul 2020 12:23:03: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:23:03: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:23:03: #1 total tags in treatment: 2813836 INFO @ Wed, 22 Jul 2020 12:23:03: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:23:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 12:23:03: #1 tags after filtering in treatment: 1698738 INFO @ Wed, 22 Jul 2020 12:23:03: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Jul 2020 12:23:03: #1 finished! INFO @ Wed, 22 Jul 2020 12:23:03: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:23:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:23:03: #2 number of paired peaks: 88 WARNING @ Wed, 22 Jul 2020 12:23:03: Too few paired peaks (88) 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 @ Wed, 22 Jul 2020 12:23:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 12:23:06: 4000000 INFO @ Wed, 22 Jul 2020 12:23:14: 5000000 INFO @ Wed, 22 Jul 2020 12:23:23: 6000000 INFO @ Wed, 22 Jul 2020 12:23:32: 7000000 INFO @ Wed, 22 Jul 2020 12:23:35: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:23:35: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:23:35: #1 total tags in treatment: 2813836 INFO @ Wed, 22 Jul 2020 12:23:35: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:23:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 12:23:35: #1 tags after filtering in treatment: 1698738 INFO @ Wed, 22 Jul 2020 12:23:35: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Jul 2020 12:23:35: #1 finished! INFO @ Wed, 22 Jul 2020 12:23:35: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:23:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:23:35: #2 number of paired peaks: 88 WARNING @ Wed, 22 Jul 2020 12:23:35: Too few paired peaks (88) 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 @ Wed, 22 Jul 2020 12:23:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911513/SRX6911513.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling