Job ID = 12531643 SRX = SRX4555022 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13648023 spots for SRR7696715/SRR7696715.sra Written 13648023 spots for SRR7696715/SRR7696715.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: 00:17:36 13648023 reads; of these: 13648023 (100.00%) were paired; of these: 877909 (6.43%) aligned concordantly 0 times 6631575 (48.59%) aligned concordantly exactly 1 time 6138539 (44.98%) aligned concordantly >1 times ---- 877909 pairs aligned concordantly 0 times; of these: 54118 (6.16%) aligned discordantly 1 time ---- 823791 pairs aligned 0 times concordantly or discordantly; of these: 1647582 mates make up the pairs; of these: 1319050 (80.06%) aligned 0 times 172974 (10.50%) aligned exactly 1 time 155558 (9.44%) aligned >1 times 95.17% overall alignment rate Time searching: 00:17:36 Overall time: 00:17:36 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] 2424597 / 5904648 = 0.4106 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 09:17:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.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 09:17:36: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:17:36: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:17:50: 1000000 INFO @ Sat, 17 Apr 2021 09:18:03: 2000000 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 09:18:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.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 09:18:06: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:18:06: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:18:16: 1000000 INFO @ Sat, 17 Apr 2021 09:18:18: 3000000 INFO @ Sat, 17 Apr 2021 09:18:25: 2000000 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 09:18:34: 4000000 INFO @ Sat, 17 Apr 2021 09:18:35: 3000000 INFO @ Sat, 17 Apr 2021 09:18:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.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 09:18:36: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:18:36: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:18:45: 4000000 INFO @ Sat, 17 Apr 2021 09:18:46: 1000000 INFO @ Sat, 17 Apr 2021 09:18:52: 5000000 INFO @ Sat, 17 Apr 2021 09:18:55: 5000000 INFO @ Sat, 17 Apr 2021 09:18:56: 2000000 INFO @ Sat, 17 Apr 2021 09:19:05: 6000000 INFO @ Sat, 17 Apr 2021 09:19:06: 3000000 INFO @ Sat, 17 Apr 2021 09:19:10: 6000000 INFO @ Sat, 17 Apr 2021 09:19:15: 7000000 INFO @ Sat, 17 Apr 2021 09:19:17: 4000000 INFO @ Sat, 17 Apr 2021 09:19:25: 8000000 INFO @ Sat, 17 Apr 2021 09:19:27: 7000000 INFO @ Sat, 17 Apr 2021 09:19:27: 5000000 INFO @ Sat, 17 Apr 2021 09:19:35: 9000000 INFO @ Sat, 17 Apr 2021 09:19:37: 6000000 INFO @ Sat, 17 Apr 2021 09:19:44: 10000000 INFO @ Sat, 17 Apr 2021 09:19:48: 8000000 INFO @ Sat, 17 Apr 2021 09:19:48: 7000000 INFO @ Sat, 17 Apr 2021 09:19:53: 11000000 INFO @ Sat, 17 Apr 2021 09:19:59: 8000000 INFO @ Sat, 17 Apr 2021 09:20:02: 12000000 INFO @ Sat, 17 Apr 2021 09:20:07: 9000000 INFO @ Sat, 17 Apr 2021 09:20:10: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:20:12: 13000000 INFO @ Sat, 17 Apr 2021 09:20:20: 10000000 INFO @ Sat, 17 Apr 2021 09:20:20: 10000000 INFO @ Sat, 17 Apr 2021 09:20:21: 14000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:20:30: 15000000 INFO @ Sat, 17 Apr 2021 09:20:31: 11000000 INFO @ Sat, 17 Apr 2021 09:20:36: 11000000 INFO @ Sat, 17 Apr 2021 09:20:39: 16000000 INFO @ Sat, 17 Apr 2021 09:20:40: 12000000 INFO @ Sat, 17 Apr 2021 09:20:48: 17000000 INFO @ Sat, 17 Apr 2021 09:20:50: 13000000 INFO @ Sat, 17 Apr 2021 09:20:55: 12000000 INFO @ Sat, 17 Apr 2021 09:20:58: 18000000 INFO @ Sat, 17 Apr 2021 09:20:59: 14000000 INFO @ Sat, 17 Apr 2021 09:21:08: 19000000 INFO @ Sat, 17 Apr 2021 09:21:09: 15000000 INFO @ Sat, 17 Apr 2021 09:21:14: 13000000 INFO @ Sat, 17 Apr 2021 09:21:18: 20000000 INFO @ Sat, 17 Apr 2021 09:21:18: 16000000 INFO @ Sat, 17 Apr 2021 09:21:28: 21000000 INFO @ Sat, 17 Apr 2021 09:21:28: 17000000 INFO @ Sat, 17 Apr 2021 09:21:28: 14000000 INFO @ Sat, 17 Apr 2021 09:21:29: #1 tag size is determined as 75 bps INFO @ Sat, 17 Apr 2021 09:21:29: #1 tag size = 75 INFO @ Sat, 17 Apr 2021 09:21:29: #1 total tags in treatment: 10348911 INFO @ Sat, 17 Apr 2021 09:21:29: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:21:29: #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 09:21:29: #1 tags after filtering in treatment: 2668849 INFO @ Sat, 17 Apr 2021 09:21:29: #1 Redundant rate of treatment: 0.74 INFO @ Sat, 17 Apr 2021 09:21:29: #1 finished! INFO @ Sat, 17 Apr 2021 09:21:29: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:21:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:21:30: #2 number of paired peaks: 53 WARNING @ Sat, 17 Apr 2021 09:21:30: Too few paired peaks (53) 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 09:21:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:21:38: 18000000 INFO @ Sat, 17 Apr 2021 09:21:42: 15000000 INFO @ Sat, 17 Apr 2021 09:21:47: 19000000 INFO @ Sat, 17 Apr 2021 09:21:55: 16000000 INFO @ Sat, 17 Apr 2021 09:21:57: 20000000 INFO @ Sat, 17 Apr 2021 09:22:06: 21000000 INFO @ Sat, 17 Apr 2021 09:22:07: #1 tag size is determined as 75 bps INFO @ Sat, 17 Apr 2021 09:22:07: #1 tag size = 75 INFO @ Sat, 17 Apr 2021 09:22:07: #1 total tags in treatment: 10348911 INFO @ Sat, 17 Apr 2021 09:22:07: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:22:07: #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 09:22:08: #1 tags after filtering in treatment: 2668849 INFO @ Sat, 17 Apr 2021 09:22:08: #1 Redundant rate of treatment: 0.74 INFO @ Sat, 17 Apr 2021 09:22:08: #1 finished! INFO @ Sat, 17 Apr 2021 09:22:08: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:22:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:22:08: #2 number of paired peaks: 53 WARNING @ Sat, 17 Apr 2021 09:22:08: Too few paired peaks (53) 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 09:22:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:22:13: 17000000 INFO @ Sat, 17 Apr 2021 09:22:29: 18000000 INFO @ Sat, 17 Apr 2021 09:22:46: 19000000 INFO @ Sat, 17 Apr 2021 09:23:02: 20000000 INFO @ Sat, 17 Apr 2021 09:23:15: 21000000 INFO @ Sat, 17 Apr 2021 09:23:16: #1 tag size is determined as 75 bps INFO @ Sat, 17 Apr 2021 09:23:16: #1 tag size = 75 INFO @ Sat, 17 Apr 2021 09:23:16: #1 total tags in treatment: 10348911 INFO @ Sat, 17 Apr 2021 09:23:16: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:23:16: #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 09:23:17: #1 tags after filtering in treatment: 2668849 INFO @ Sat, 17 Apr 2021 09:23:17: #1 Redundant rate of treatment: 0.74 INFO @ Sat, 17 Apr 2021 09:23:17: #1 finished! INFO @ Sat, 17 Apr 2021 09:23:17: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:23:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:23:17: #2 number of paired peaks: 53 WARNING @ Sat, 17 Apr 2021 09:23:17: Too few paired peaks (53) 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 09:23:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.05_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/SRX4555022/SRX4555022.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555022/SRX4555022.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling