Job ID = 14520229 SRX = SRX9346309 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 9770186 spots for SRR12880347/SRR12880347.sra Written 9770186 spots for SRR12880347/SRR12880347.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: 00:12:45 9770186 reads; of these: 9770186 (100.00%) were paired; of these: 267958 (2.74%) aligned concordantly 0 times 8678127 (88.82%) aligned concordantly exactly 1 time 824101 (8.43%) aligned concordantly >1 times ---- 267958 pairs aligned concordantly 0 times; of these: 71479 (26.68%) aligned discordantly 1 time ---- 196479 pairs aligned 0 times concordantly or discordantly; of these: 392958 mates make up the pairs; of these: 245687 (62.52%) aligned 0 times 120399 (30.64%) aligned exactly 1 time 26872 (6.84%) aligned >1 times 98.74% overall alignment rate Time searching: 00:12:45 Overall time: 00:12:45 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] 1148182 / 9404700 = 0.1221 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 19:09:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.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 19:09:19: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:09:19: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:09:27: 1000000 INFO @ Sat, 15 Jan 2022 19:09:34: 2000000 INFO @ Sat, 15 Jan 2022 19:09:41: 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 19:09:48: 4000000 INFO @ Sat, 15 Jan 2022 19:09:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.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 19:09:49: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:09:49: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:09:57: 5000000 INFO @ Sat, 15 Jan 2022 19:09:58: 1000000 INFO @ Sat, 15 Jan 2022 19:10:05: 6000000 INFO @ Sat, 15 Jan 2022 19:10:07: 2000000 INFO @ Sat, 15 Jan 2022 19:10:13: 7000000 INFO @ Sat, 15 Jan 2022 19:10:16: 3000000 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 19:10:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.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 19:10:20: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:10:20: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:10:21: 8000000 INFO @ Sat, 15 Jan 2022 19:10:24: 4000000 INFO @ Sat, 15 Jan 2022 19:10:29: 1000000 INFO @ Sat, 15 Jan 2022 19:10:30: 9000000 INFO @ Sat, 15 Jan 2022 19:10:33: 5000000 INFO @ Sat, 15 Jan 2022 19:10:38: 2000000 INFO @ Sat, 15 Jan 2022 19:10:40: 10000000 INFO @ Sat, 15 Jan 2022 19:10:42: 6000000 INFO @ Sat, 15 Jan 2022 19:10:47: 3000000 INFO @ Sat, 15 Jan 2022 19:10:50: 11000000 INFO @ Sat, 15 Jan 2022 19:10:51: 7000000 INFO @ Sat, 15 Jan 2022 19:10:56: 4000000 INFO @ Sat, 15 Jan 2022 19:10:59: 12000000 INFO @ Sat, 15 Jan 2022 19:11:01: 8000000 INFO @ Sat, 15 Jan 2022 19:11:05: 5000000 INFO @ Sat, 15 Jan 2022 19:11:09: 13000000 INFO @ Sat, 15 Jan 2022 19:11:10: 9000000 INFO @ Sat, 15 Jan 2022 19:11:14: 6000000 INFO @ Sat, 15 Jan 2022 19:11:19: 14000000 INFO @ Sat, 15 Jan 2022 19:11:19: 10000000 INFO @ Sat, 15 Jan 2022 19:11:23: 7000000 INFO @ Sat, 15 Jan 2022 19:11:28: 11000000 INFO @ Sat, 15 Jan 2022 19:11:29: 15000000 INFO @ Sat, 15 Jan 2022 19:11:32: 8000000 INFO @ Sat, 15 Jan 2022 19:11:37: 12000000 INFO @ Sat, 15 Jan 2022 19:11:38: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:11:41: 9000000 INFO @ Sat, 15 Jan 2022 19:11:46: 13000000 INFO @ Sat, 15 Jan 2022 19:11:48: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:11:48: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:11:48: #1 total tags in treatment: 8354870 INFO @ Sat, 15 Jan 2022 19:11:48: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:11:48: #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 19:11:48: #1 tags after filtering in treatment: 4739406 INFO @ Sat, 15 Jan 2022 19:11:48: #1 Redundant rate of treatment: 0.43 INFO @ Sat, 15 Jan 2022 19:11:48: #1 finished! INFO @ Sat, 15 Jan 2022 19:11:48: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:11:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:11:48: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:11:48: Too few paired peaks (0) 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 19:11:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.05_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/SRX9346309/SRX9346309.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:11:50: 10000000 INFO @ Sat, 15 Jan 2022 19:11:54: 14000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:11:58: 11000000 INFO @ Sat, 15 Jan 2022 19:12:03: 15000000 INFO @ Sat, 15 Jan 2022 19:12:06: 12000000 INFO @ Sat, 15 Jan 2022 19:12:11: 16000000 INFO @ Sat, 15 Jan 2022 19:12:15: 13000000 INFO @ Sat, 15 Jan 2022 19:12:20: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:12:20: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:12:20: #1 total tags in treatment: 8354870 INFO @ Sat, 15 Jan 2022 19:12:20: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:12:20: #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 19:12:20: #1 tags after filtering in treatment: 4739406 INFO @ Sat, 15 Jan 2022 19:12:20: #1 Redundant rate of treatment: 0.43 INFO @ Sat, 15 Jan 2022 19:12:20: #1 finished! INFO @ Sat, 15 Jan 2022 19:12:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:12:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:12:20: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:12:20: Too few paired peaks (0) 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 19:12:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.10_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/SRX9346309/SRX9346309.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:12:23: 14000000 INFO @ Sat, 15 Jan 2022 19:12:30: 15000000 INFO @ Sat, 15 Jan 2022 19:12:38: 16000000 INFO @ Sat, 15 Jan 2022 19:12:45: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:12:45: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:12:45: #1 total tags in treatment: 8354870 INFO @ Sat, 15 Jan 2022 19:12:45: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:12:45: #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 19:12:45: #1 tags after filtering in treatment: 4739406 INFO @ Sat, 15 Jan 2022 19:12:45: #1 Redundant rate of treatment: 0.43 INFO @ Sat, 15 Jan 2022 19:12:45: #1 finished! INFO @ Sat, 15 Jan 2022 19:12:45: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:12:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:12:46: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:12:46: Too few paired peaks (0) 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 19:12:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.20_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/SRX9346309/SRX9346309.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346309/SRX9346309.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling