Job ID = 14522114 SRX = SRX9067146 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6368155 spots for SRR12580299/SRR12580299.sra Written 6368155 spots for SRR12580299/SRR12580299.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: 00:03:54 6368155 reads; of these: 6368155 (100.00%) were paired; of these: 999514 (15.70%) aligned concordantly 0 times 4739345 (74.42%) aligned concordantly exactly 1 time 629296 (9.88%) aligned concordantly >1 times ---- 999514 pairs aligned concordantly 0 times; of these: 208040 (20.81%) aligned discordantly 1 time ---- 791474 pairs aligned 0 times concordantly or discordantly; of these: 1582948 mates make up the pairs; of these: 1209797 (76.43%) aligned 0 times 286824 (18.12%) aligned exactly 1 time 86327 (5.45%) aligned >1 times 90.50% overall alignment rate Time searching: 00:03:54 Overall time: 00:03:54 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] 444064 / 5501869 = 0.0807 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 22:18:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.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 22:18:33: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:18:33: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:18:40: 1000000 INFO @ Sat, 15 Jan 2022 22:18:46: 2000000 INFO @ Sat, 15 Jan 2022 22:18:53: 3000000 INFO @ Sat, 15 Jan 2022 22:19:00: 4000000 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 22:19:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.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 22:19:03: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:19:03: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:19:07: 5000000 INFO @ Sat, 15 Jan 2022 22:19:10: 1000000 INFO @ Sat, 15 Jan 2022 22:19:14: 6000000 INFO @ Sat, 15 Jan 2022 22:19:17: 2000000 INFO @ Sat, 15 Jan 2022 22:19:20: 7000000 INFO @ Sat, 15 Jan 2022 22:19:24: 3000000 INFO @ Sat, 15 Jan 2022 22:19:27: 8000000 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 22:19:31: 4000000 INFO @ Sat, 15 Jan 2022 22:19:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.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 22:19:33: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:19:33: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:19:34: 9000000 INFO @ Sat, 15 Jan 2022 22:19:38: 5000000 INFO @ Sat, 15 Jan 2022 22:19:41: 1000000 INFO @ Sat, 15 Jan 2022 22:19:41: 10000000 INFO @ Sat, 15 Jan 2022 22:19:45: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 22:19:45: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 22:19:45: #1 total tags in treatment: 4928994 INFO @ Sat, 15 Jan 2022 22:19:45: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:19:45: #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 22:19:45: #1 tags after filtering in treatment: 3362582 INFO @ Sat, 15 Jan 2022 22:19:45: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 22:19:45: #1 finished! INFO @ Sat, 15 Jan 2022 22:19:45: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:19:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:19:45: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:19:45: 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 22:19:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis INFO @ Sat, 15 Jan 2022 22:19:46: 6000000 needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:19:48: 2000000 INFO @ Sat, 15 Jan 2022 22:19:53: 7000000 INFO @ Sat, 15 Jan 2022 22:19:55: 3000000 INFO @ Sat, 15 Jan 2022 22:20:00: 8000000 INFO @ Sat, 15 Jan 2022 22:20:02: 4000000 INFO @ Sat, 15 Jan 2022 22:20:07: 9000000 INFO @ Sat, 15 Jan 2022 22:20:09: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:20:15: 10000000 INFO @ Sat, 15 Jan 2022 22:20:17: 6000000 INFO @ Sat, 15 Jan 2022 22:20:19: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 22:20:19: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 22:20:19: #1 total tags in treatment: 4928994 INFO @ Sat, 15 Jan 2022 22:20:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:20:19: #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 22:20:19: #1 tags after filtering in treatment: 3362582 INFO @ Sat, 15 Jan 2022 22:20:19: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 22:20:19: #1 finished! INFO @ Sat, 15 Jan 2022 22:20:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:20:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:20:19: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:20:19: 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 22:20:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.10_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/SRX9067146/SRX9067146.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:20:24: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:20:30: 8000000 INFO @ Sat, 15 Jan 2022 22:20:37: 9000000 INFO @ Sat, 15 Jan 2022 22:20:44: 10000000 INFO @ Sat, 15 Jan 2022 22:20:48: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 22:20:48: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 22:20:48: #1 total tags in treatment: 4928994 INFO @ Sat, 15 Jan 2022 22:20:48: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:20:48: #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 22:20:48: #1 tags after filtering in treatment: 3362582 INFO @ Sat, 15 Jan 2022 22:20:48: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 22:20:48: #1 finished! INFO @ Sat, 15 Jan 2022 22:20:48: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:20:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:20:49: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:20:49: 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 22:20:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.20_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/SRX9067146/SRX9067146.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067146/SRX9067146.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling