Job ID = 14519680 SRX = SRX9067170 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6182228 spots for SRR12580323/SRR12580323.sra Written 6182228 spots for SRR12580323/SRR12580323.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: 00:02:52 6182228 reads; of these: 6182228 (100.00%) were paired; of these: 1689550 (27.33%) aligned concordantly 0 times 3951503 (63.92%) aligned concordantly exactly 1 time 541175 (8.75%) aligned concordantly >1 times ---- 1689550 pairs aligned concordantly 0 times; of these: 187077 (11.07%) aligned discordantly 1 time ---- 1502473 pairs aligned 0 times concordantly or discordantly; of these: 3004946 mates make up the pairs; of these: 2757594 (91.77%) aligned 0 times 176083 (5.86%) aligned exactly 1 time 71269 (2.37%) aligned >1 times 77.70% overall alignment rate Time searching: 00:02:52 Overall time: 00:02:52 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] 652507 / 4598890 = 0.1419 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 17:27:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.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 17:27:23: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:27:23: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:27:27: 1000000 INFO @ Sat, 15 Jan 2022 17:27:32: 2000000 INFO @ Sat, 15 Jan 2022 17:27:36: 3000000 INFO @ Sat, 15 Jan 2022 17:27:41: 4000000 INFO @ Sat, 15 Jan 2022 17:27:45: 5000000 INFO @ Sat, 15 Jan 2022 17:27:50: 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 17:27:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.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 17:27:53: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:27:53: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:27:54: 7000000 INFO @ Sat, 15 Jan 2022 17:27:59: 1000000 INFO @ Sat, 15 Jan 2022 17:27:59: 8000000 INFO @ Sat, 15 Jan 2022 17:28:01: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 17:28:01: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 17:28:01: #1 total tags in treatment: 3849592 INFO @ Sat, 15 Jan 2022 17:28:01: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:28:01: #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 17:28:01: #1 tags after filtering in treatment: 2717474 INFO @ Sat, 15 Jan 2022 17:28:01: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 17:28:01: #1 finished! INFO @ Sat, 15 Jan 2022 17:28:01: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:28:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:28:01: #2 number of paired peaks: 6 WARNING @ Sat, 15 Jan 2022 17:28:01: Too few paired peaks (6) 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 17:28:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.05_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/SRX9067170/SRX9067170.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:28:04: 2000000 INFO @ Sat, 15 Jan 2022 17:28:10: 3000000 INFO @ Sat, 15 Jan 2022 17:28:16: 4000000 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 17:28:22: 5000000 INFO @ Sat, 15 Jan 2022 17:28:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.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 17:28:23: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:28:23: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:28:28: 6000000 INFO @ Sat, 15 Jan 2022 17:28:28: 1000000 INFO @ Sat, 15 Jan 2022 17:28:33: 2000000 INFO @ Sat, 15 Jan 2022 17:28:34: 7000000 INFO @ Sat, 15 Jan 2022 17:28:38: 3000000 INFO @ Sat, 15 Jan 2022 17:28:40: 8000000 INFO @ Sat, 15 Jan 2022 17:28:41: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 17:28:41: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 17:28:41: #1 total tags in treatment: 3849592 INFO @ Sat, 15 Jan 2022 17:28:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:28:41: #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 17:28:42: #1 tags after filtering in treatment: 2717474 INFO @ Sat, 15 Jan 2022 17:28:42: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 17:28:42: #1 finished! INFO @ Sat, 15 Jan 2022 17:28:42: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:28:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:28:42: #2 number of paired peaks: 6 WARNING @ Sat, 15 Jan 2022 17:28:42: Too few paired peaks (6) 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 17:28:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.10_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/SRX9067170/SRX9067170.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:28:44: 4000000 INFO @ Sat, 15 Jan 2022 17:28:48: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:28:53: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:28:58: 7000000 INFO @ Sat, 15 Jan 2022 17:29:03: 8000000 INFO @ Sat, 15 Jan 2022 17:29:04: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 17:29:04: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 17:29:04: #1 total tags in treatment: 3849592 INFO @ Sat, 15 Jan 2022 17:29:04: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:29:04: #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 17:29:04: #1 tags after filtering in treatment: 2717474 INFO @ Sat, 15 Jan 2022 17:29:04: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 17:29:04: #1 finished! INFO @ Sat, 15 Jan 2022 17:29:04: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:29:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:29:05: #2 number of paired peaks: 6 WARNING @ Sat, 15 Jan 2022 17:29:05: Too few paired peaks (6) 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 17:29:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.20_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/SRX9067170/SRX9067170.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067170/SRX9067170.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling