Job ID = 12531644 SRX = SRX4555023 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13091741 spots for SRR7696716/SRR7696716.sra Written 13091741 spots for SRR7696716/SRR7696716.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: 00:17:33 13091741 reads; of these: 13091741 (100.00%) were paired; of these: 691768 (5.28%) aligned concordantly 0 times 6229658 (47.58%) aligned concordantly exactly 1 time 6170315 (47.13%) aligned concordantly >1 times ---- 691768 pairs aligned concordantly 0 times; of these: 47868 (6.92%) aligned discordantly 1 time ---- 643900 pairs aligned 0 times concordantly or discordantly; of these: 1287800 mates make up the pairs; of these: 996480 (77.38%) aligned 0 times 147743 (11.47%) aligned exactly 1 time 143577 (11.15%) aligned >1 times 96.19% overall alignment rate Time searching: 00:17:33 Overall time: 00:17:33 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 20 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] 2449847 / 5839944 = 0.4195 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:16:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.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, 17 Apr 2021 09:16:42: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:16:42: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:16:50: 1000000 INFO @ Sat, 17 Apr 2021 09:16:59: 2000000 INFO @ Sat, 17 Apr 2021 09:17:08: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:17:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.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, 17 Apr 2021 09:17:12: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:17:12: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:17:17: 4000000 INFO @ Sat, 17 Apr 2021 09:17:21: 1000000 INFO @ Sat, 17 Apr 2021 09:17:27: 5000000 INFO @ Sat, 17 Apr 2021 09:17:31: 2000000 INFO @ Sat, 17 Apr 2021 09:17:37: 6000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:17:41: 3000000 INFO @ Sat, 17 Apr 2021 09:17:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.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, 17 Apr 2021 09:17:42: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:17:42: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:17:47: 7000000 INFO @ Sat, 17 Apr 2021 09:17:50: 4000000 INFO @ Sat, 17 Apr 2021 09:17:51: 1000000 INFO @ Sat, 17 Apr 2021 09:17:57: 8000000 INFO @ Sat, 17 Apr 2021 09:18:01: 5000000 INFO @ Sat, 17 Apr 2021 09:18:01: 2000000 INFO @ Sat, 17 Apr 2021 09:18:06: 9000000 INFO @ Sat, 17 Apr 2021 09:18:11: 6000000 INFO @ Sat, 17 Apr 2021 09:18:11: 3000000 INFO @ Sat, 17 Apr 2021 09:18:15: 10000000 INFO @ Sat, 17 Apr 2021 09:18:21: 4000000 INFO @ Sat, 17 Apr 2021 09:18:21: 7000000 INFO @ Sat, 17 Apr 2021 09:18:24: 11000000 INFO @ Sat, 17 Apr 2021 09:18:30: 5000000 INFO @ Sat, 17 Apr 2021 09:18:31: 8000000 INFO @ Sat, 17 Apr 2021 09:18:34: 12000000 INFO @ Sat, 17 Apr 2021 09:18:40: 6000000 INFO @ Sat, 17 Apr 2021 09:18:41: 9000000 INFO @ Sat, 17 Apr 2021 09:18:44: 13000000 INFO @ Sat, 17 Apr 2021 09:18:50: 7000000 INFO @ Sat, 17 Apr 2021 09:18:50: 10000000 INFO @ Sat, 17 Apr 2021 09:18:53: 14000000 INFO @ Sat, 17 Apr 2021 09:19:00: 11000000 INFO @ Sat, 17 Apr 2021 09:19:00: 8000000 INFO @ Sat, 17 Apr 2021 09:19:02: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:19:10: 9000000 INFO @ Sat, 17 Apr 2021 09:19:10: 12000000 INFO @ Sat, 17 Apr 2021 09:19:12: 16000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:19:19: 10000000 INFO @ Sat, 17 Apr 2021 09:19:19: 13000000 INFO @ Sat, 17 Apr 2021 09:19:22: 17000000 INFO @ Sat, 17 Apr 2021 09:19:28: 11000000 INFO @ Sat, 17 Apr 2021 09:19:29: 14000000 INFO @ Sat, 17 Apr 2021 09:19:32: 18000000 INFO @ Sat, 17 Apr 2021 09:19:37: 12000000 INFO @ Sat, 17 Apr 2021 09:19:38: 15000000 INFO @ Sat, 17 Apr 2021 09:19:42: 19000000 INFO @ Sat, 17 Apr 2021 09:19:47: 13000000 INFO @ Sat, 17 Apr 2021 09:19:48: 16000000 INFO @ Sat, 17 Apr 2021 09:19:52: 20000000 INFO @ Sat, 17 Apr 2021 09:19:55: #1 tag size is determined as 86 bps INFO @ Sat, 17 Apr 2021 09:19:55: #1 tag size = 86 INFO @ Sat, 17 Apr 2021 09:19:55: #1 total tags in treatment: 9952684 INFO @ Sat, 17 Apr 2021 09:19:55: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:19:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:19:55: #1 tags after filtering in treatment: 2641084 INFO @ Sat, 17 Apr 2021 09:19:55: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 09:19:55: #1 finished! INFO @ Sat, 17 Apr 2021 09:19:55: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:19:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:19:55: #2 number of paired peaks: 55 WARNING @ Sat, 17 Apr 2021 09:19:55: Too few paired peaks (55) 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, 17 Apr 2021 09:19:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.05_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/SRX4555023/SRX4555023.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:19:56: 14000000 INFO @ Sat, 17 Apr 2021 09:19:58: 17000000 INFO @ Sat, 17 Apr 2021 09:20:04: 15000000 INFO @ Sat, 17 Apr 2021 09:20:08: 18000000 INFO @ Sat, 17 Apr 2021 09:20:14: 16000000 INFO @ Sat, 17 Apr 2021 09:20:17: 19000000 INFO @ Sat, 17 Apr 2021 09:20:23: 17000000 INFO @ Sat, 17 Apr 2021 09:20:27: 20000000 INFO @ Sat, 17 Apr 2021 09:20:30: #1 tag size is determined as 86 bps INFO @ Sat, 17 Apr 2021 09:20:30: #1 tag size = 86 INFO @ Sat, 17 Apr 2021 09:20:30: #1 total tags in treatment: 9952684 INFO @ Sat, 17 Apr 2021 09:20:30: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:20:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:20:30: #1 tags after filtering in treatment: 2641084 INFO @ Sat, 17 Apr 2021 09:20:30: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 09:20:30: #1 finished! INFO @ Sat, 17 Apr 2021 09:20:30: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:20:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:20:30: #2 number of paired peaks: 55 WARNING @ Sat, 17 Apr 2021 09:20:30: Too few paired peaks (55) 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, 17 Apr 2021 09:20:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.10_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/SRX4555023/SRX4555023.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:20:32: 18000000 INFO @ Sat, 17 Apr 2021 09:20:41: 19000000 INFO @ Sat, 17 Apr 2021 09:20:50: 20000000 INFO @ Sat, 17 Apr 2021 09:20:53: #1 tag size is determined as 86 bps INFO @ Sat, 17 Apr 2021 09:20:53: #1 tag size = 86 INFO @ Sat, 17 Apr 2021 09:20:53: #1 total tags in treatment: 9952684 INFO @ Sat, 17 Apr 2021 09:20:53: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:20:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:20:53: #1 tags after filtering in treatment: 2641084 INFO @ Sat, 17 Apr 2021 09:20:53: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 09:20:53: #1 finished! INFO @ Sat, 17 Apr 2021 09:20:53: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:20:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:20:53: #2 number of paired peaks: 55 WARNING @ Sat, 17 Apr 2021 09:20:53: Too few paired peaks (55) 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, 17 Apr 2021 09:20:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.20_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/SRX4555023/SRX4555023.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555023/SRX4555023.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling