Job ID = 14519648 SRX = SRX9067161 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5193749 spots for SRR12580314/SRR12580314.sra Written 5193749 spots for SRR12580314/SRR12580314.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: 00:02:08 5193749 reads; of these: 5193749 (100.00%) were paired; of these: 884483 (17.03%) aligned concordantly 0 times 3691532 (71.08%) aligned concordantly exactly 1 time 617734 (11.89%) aligned concordantly >1 times ---- 884483 pairs aligned concordantly 0 times; of these: 136889 (15.48%) aligned discordantly 1 time ---- 747594 pairs aligned 0 times concordantly or discordantly; of these: 1495188 mates make up the pairs; of these: 1259853 (84.26%) aligned 0 times 166763 (11.15%) aligned exactly 1 time 68572 (4.59%) aligned >1 times 87.87% overall alignment rate Time searching: 00:02:08 Overall time: 00:02:08 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] 432112 / 4369920 = 0.0989 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 17:16:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.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 17:16:10: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:16:10: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:16:15: 1000000 INFO @ Sat, 15 Jan 2022 17:16:20: 2000000 INFO @ Sat, 15 Jan 2022 17:16:24: 3000000 INFO @ Sat, 15 Jan 2022 17:16:29: 4000000 INFO @ Sat, 15 Jan 2022 17:16:33: 5000000 INFO @ Sat, 15 Jan 2022 17:16:38: 6000000 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 17:16:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.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 17:16:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:16:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:16:43: 7000000 INFO @ Sat, 15 Jan 2022 17:16:46: 1000000 INFO @ Sat, 15 Jan 2022 17:16:49: 8000000 INFO @ Sat, 15 Jan 2022 17:16:50: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 17:16:50: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 17:16:50: #1 total tags in treatment: 3878488 INFO @ Sat, 15 Jan 2022 17:16:50: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:16:50: #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 17:16:50: #1 tags after filtering in treatment: 2743172 INFO @ Sat, 15 Jan 2022 17:16:50: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 17:16:50: #1 finished! INFO @ Sat, 15 Jan 2022 17:16:50: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:16:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:16:50: #2 number of paired peaks: 13 WARNING @ Sat, 15 Jan 2022 17:16:50: Too few paired peaks (13) 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 17:16:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.05_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/SRX9067161/SRX9067161.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:16:52: 2000000 INFO @ Sat, 15 Jan 2022 17:16:57: 3000000 INFO @ Sat, 15 Jan 2022 17:17:01: 4000000 INFO @ Sat, 15 Jan 2022 17:17:06: 5000000 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 17:17:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.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 17:17:10: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:17:10: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:17:10: 6000000 INFO @ Sat, 15 Jan 2022 17:17:16: 1000000 INFO @ Sat, 15 Jan 2022 17:17:16: 7000000 INFO @ Sat, 15 Jan 2022 17:17:21: 2000000 INFO @ Sat, 15 Jan 2022 17:17:21: 8000000 INFO @ Sat, 15 Jan 2022 17:17:22: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 17:17:22: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 17:17:22: #1 total tags in treatment: 3878488 INFO @ Sat, 15 Jan 2022 17:17:22: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:17:22: #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 17:17:22: #1 tags after filtering in treatment: 2743172 INFO @ Sat, 15 Jan 2022 17:17:22: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 17:17:22: #1 finished! INFO @ Sat, 15 Jan 2022 17:17:22: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:17:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:17:23: #2 number of paired peaks: 13 WARNING @ Sat, 15 Jan 2022 17:17:23: Too few paired peaks (13) 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 17:17:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.10_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/SRX9067161/SRX9067161.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:17:26: 3000000 INFO @ Sat, 15 Jan 2022 17:17:31: 4000000 INFO @ Sat, 15 Jan 2022 17:17:35: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:17:40: 6000000 INFO @ Sat, 15 Jan 2022 17:17:45: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:17:49: 8000000 INFO @ Sat, 15 Jan 2022 17:17:50: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 17:17:50: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 17:17:50: #1 total tags in treatment: 3878488 INFO @ Sat, 15 Jan 2022 17:17:50: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:17:50: #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 17:17:51: #1 tags after filtering in treatment: 2743172 INFO @ Sat, 15 Jan 2022 17:17:51: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 17:17:51: #1 finished! INFO @ Sat, 15 Jan 2022 17:17:51: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:17:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:17:51: #2 number of paired peaks: 13 WARNING @ Sat, 15 Jan 2022 17:17:51: Too few paired peaks (13) 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 17:17:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.20_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/SRX9067161/SRX9067161.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067161/SRX9067161.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling