Job ID = 14522093 SRX = SRX9067130 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6025829 spots for SRR12580283/SRR12580283.sra Written 6025829 spots for SRR12580283/SRR12580283.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: 00:04:09 6025829 reads; of these: 6025829 (100.00%) were paired; of these: 739002 (12.26%) aligned concordantly 0 times 4564570 (75.75%) aligned concordantly exactly 1 time 722257 (11.99%) aligned concordantly >1 times ---- 739002 pairs aligned concordantly 0 times; of these: 277871 (37.60%) aligned discordantly 1 time ---- 461131 pairs aligned 0 times concordantly or discordantly; of these: 922262 mates make up the pairs; of these: 578805 (62.76%) aligned 0 times 226913 (24.60%) aligned exactly 1 time 116544 (12.64%) aligned >1 times 95.20% overall alignment rate Time searching: 00:04:09 Overall time: 00:04:09 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] 606592 / 5357301 = 0.1132 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 22:16:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.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 @ Sat, 15 Jan 2022 22:16:53: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:16:53: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:17:01: 1000000 INFO @ Sat, 15 Jan 2022 22:17:09: 2000000 INFO @ Sat, 15 Jan 2022 22:17:17: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 22:17:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.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 @ Sat, 15 Jan 2022 22:17:23: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:17:23: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:17:24: 4000000 INFO @ Sat, 15 Jan 2022 22:17:31: 1000000 INFO @ Sat, 15 Jan 2022 22:17:32: 5000000 INFO @ Sat, 15 Jan 2022 22:17:38: 2000000 INFO @ Sat, 15 Jan 2022 22:17:39: 6000000 INFO @ Sat, 15 Jan 2022 22:17:46: 3000000 INFO @ Sat, 15 Jan 2022 22:17:47: 7000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 22:17:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.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 @ Sat, 15 Jan 2022 22:17:53: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:17:53: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:17:54: 8000000 INFO @ Sat, 15 Jan 2022 22:17:54: 4000000 INFO @ Sat, 15 Jan 2022 22:18:00: 1000000 INFO @ Sat, 15 Jan 2022 22:18:01: 9000000 INFO @ Sat, 15 Jan 2022 22:18:02: 5000000 INFO @ Sat, 15 Jan 2022 22:18:07: 2000000 INFO @ Sat, 15 Jan 2022 22:18:08: 10000000 INFO @ Sat, 15 Jan 2022 22:18:09: 6000000 INFO @ Sat, 15 Jan 2022 22:18:10: #1 tag size is determined as 42 bps INFO @ Sat, 15 Jan 2022 22:18:10: #1 tag size = 42 INFO @ Sat, 15 Jan 2022 22:18:10: #1 total tags in treatment: 4682087 INFO @ Sat, 15 Jan 2022 22:18:10: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:18:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 22:18:11: #1 tags after filtering in treatment: 3114281 INFO @ Sat, 15 Jan 2022 22:18:11: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 22:18:11: #1 finished! INFO @ Sat, 15 Jan 2022 22:18:11: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:18:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:18:11: #2 number of paired peaks: 4 WARNING @ Sat, 15 Jan 2022 22:18:11: Too few paired peaks (4) 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 @ Sat, 15 Jan 2022 22:18:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:18:13: 3000000 INFO @ Sat, 15 Jan 2022 22:18:16: 7000000 INFO @ Sat, 15 Jan 2022 22:18:19: 4000000 INFO @ Sat, 15 Jan 2022 22:18:24: 8000000 INFO @ Sat, 15 Jan 2022 22:18:25: 5000000 INFO @ Sat, 15 Jan 2022 22:18:31: 6000000 INFO @ Sat, 15 Jan 2022 22:18:31: 9000000 INFO @ Sat, 15 Jan 2022 22:18:37: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:18:39: 10000000 INFO @ Sat, 15 Jan 2022 22:18:41: #1 tag size is determined as 42 bps INFO @ Sat, 15 Jan 2022 22:18:41: #1 tag size = 42 INFO @ Sat, 15 Jan 2022 22:18:41: #1 total tags in treatment: 4682087 INFO @ Sat, 15 Jan 2022 22:18:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:18:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 22:18:41: #1 tags after filtering in treatment: 3114281 INFO @ Sat, 15 Jan 2022 22:18:41: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 22:18:41: #1 finished! INFO @ Sat, 15 Jan 2022 22:18:41: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:18:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:18:41: #2 number of paired peaks: 4 WARNING @ Sat, 15 Jan 2022 22:18:42: Too few paired peaks (4) 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 @ Sat, 15 Jan 2022 22:18:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.10_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/SRX9067130/SRX9067130.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:18:43: 8000000 INFO @ Sat, 15 Jan 2022 22:18:48: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:18:54: 10000000 INFO @ Sat, 15 Jan 2022 22:18:56: #1 tag size is determined as 42 bps INFO @ Sat, 15 Jan 2022 22:18:56: #1 tag size = 42 INFO @ Sat, 15 Jan 2022 22:18:56: #1 total tags in treatment: 4682087 INFO @ Sat, 15 Jan 2022 22:18:56: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:18:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 22:18:56: #1 tags after filtering in treatment: 3114281 INFO @ Sat, 15 Jan 2022 22:18:56: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 22:18:56: #1 finished! INFO @ Sat, 15 Jan 2022 22:18:56: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:18:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:18:56: #2 number of paired peaks: 4 WARNING @ Sat, 15 Jan 2022 22:18:56: Too few paired peaks (4) 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 @ Sat, 15 Jan 2022 22:18:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.20_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/SRX9067130/SRX9067130.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067130/SRX9067130.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling