Job ID = 14520637 SRX = SRX11781094 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:29:32 prefetch.2.10.7: 1) Downloading 'SRR15481037'... 2022-01-15T10:29:32 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:30:42 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:30:42 prefetch.2.10.7: 1) 'SRR15481037' was downloaded successfully 2022-01-15T10:30:42 prefetch.2.10.7: 'SRR15481037' has 0 unresolved dependencies Read 17582020 spots for SRR15481037/SRR15481037.sra Written 17582020 spots for SRR15481037/SRR15481037.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: 00:49:26 17582020 reads; of these: 17582020 (100.00%) were paired; of these: 2921837 (16.62%) aligned concordantly 0 times 5327705 (30.30%) aligned concordantly exactly 1 time 9332478 (53.08%) aligned concordantly >1 times ---- 2921837 pairs aligned concordantly 0 times; of these: 99854 (3.42%) aligned discordantly 1 time ---- 2821983 pairs aligned 0 times concordantly or discordantly; of these: 5643966 mates make up the pairs; of these: 3703352 (65.62%) aligned 0 times 652755 (11.57%) aligned exactly 1 time 1287859 (22.82%) aligned >1 times 89.47% overall alignment rate Time searching: 00:49:26 Overall time: 00:49:26 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 16 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] 2428916 / 14758931 = 0.1646 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 20:35:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.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 20:35:02: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:35:02: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:35:09: 1000000 INFO @ Sat, 15 Jan 2022 20:35:16: 2000000 INFO @ Sat, 15 Jan 2022 20:35:24: 3000000 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 20:35:30: 4000000 INFO @ Sat, 15 Jan 2022 20:35:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.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 20:35:32: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:35:32: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:35:38: 5000000 INFO @ Sat, 15 Jan 2022 20:35:39: 1000000 INFO @ Sat, 15 Jan 2022 20:35:47: 6000000 INFO @ Sat, 15 Jan 2022 20:35:47: 2000000 INFO @ Sat, 15 Jan 2022 20:35:55: 3000000 INFO @ Sat, 15 Jan 2022 20:35:55: 7000000 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 20:36:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.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 20:36:02: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:36:02: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:36:03: 4000000 INFO @ Sat, 15 Jan 2022 20:36:04: 8000000 INFO @ Sat, 15 Jan 2022 20:36:10: 1000000 INFO @ Sat, 15 Jan 2022 20:36:10: 5000000 INFO @ Sat, 15 Jan 2022 20:36:12: 9000000 INFO @ Sat, 15 Jan 2022 20:36:18: 2000000 INFO @ Sat, 15 Jan 2022 20:36:19: 6000000 INFO @ Sat, 15 Jan 2022 20:36:22: 10000000 INFO @ Sat, 15 Jan 2022 20:36:26: 3000000 INFO @ Sat, 15 Jan 2022 20:36:28: 7000000 INFO @ Sat, 15 Jan 2022 20:36:31: 11000000 INFO @ Sat, 15 Jan 2022 20:36:34: 4000000 INFO @ Sat, 15 Jan 2022 20:36:36: 8000000 INFO @ Sat, 15 Jan 2022 20:36:40: 12000000 INFO @ Sat, 15 Jan 2022 20:36:42: 5000000 INFO @ Sat, 15 Jan 2022 20:36:44: 9000000 INFO @ Sat, 15 Jan 2022 20:36:49: 13000000 INFO @ Sat, 15 Jan 2022 20:36:50: 6000000 INFO @ Sat, 15 Jan 2022 20:36:53: 10000000 INFO @ Sat, 15 Jan 2022 20:36:57: 7000000 INFO @ Sat, 15 Jan 2022 20:36:58: 14000000 INFO @ Sat, 15 Jan 2022 20:37:01: 11000000 INFO @ Sat, 15 Jan 2022 20:37:05: 8000000 INFO @ Sat, 15 Jan 2022 20:37:07: 15000000 INFO @ Sat, 15 Jan 2022 20:37:10: 12000000 INFO @ Sat, 15 Jan 2022 20:37:12: 9000000 INFO @ Sat, 15 Jan 2022 20:37:16: 16000000 INFO @ Sat, 15 Jan 2022 20:37:18: 13000000 INFO @ Sat, 15 Jan 2022 20:37:20: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:37:25: 17000000 INFO @ Sat, 15 Jan 2022 20:37:27: 14000000 INFO @ Sat, 15 Jan 2022 20:37:27: 11000000 INFO @ Sat, 15 Jan 2022 20:37:34: 18000000 INFO @ Sat, 15 Jan 2022 20:37:34: 12000000 INFO @ Sat, 15 Jan 2022 20:37:35: 15000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:37:42: 13000000 INFO @ Sat, 15 Jan 2022 20:37:43: 19000000 INFO @ Sat, 15 Jan 2022 20:37:44: 16000000 INFO @ Sat, 15 Jan 2022 20:37:49: 14000000 INFO @ Sat, 15 Jan 2022 20:37:52: 20000000 INFO @ Sat, 15 Jan 2022 20:37:52: 17000000 INFO @ Sat, 15 Jan 2022 20:37:57: 15000000 INFO @ Sat, 15 Jan 2022 20:38:01: 18000000 INFO @ Sat, 15 Jan 2022 20:38:01: 21000000 INFO @ Sat, 15 Jan 2022 20:38:04: 16000000 INFO @ Sat, 15 Jan 2022 20:38:09: 19000000 INFO @ Sat, 15 Jan 2022 20:38:10: 22000000 INFO @ Sat, 15 Jan 2022 20:38:12: 17000000 INFO @ Sat, 15 Jan 2022 20:38:18: 20000000 INFO @ Sat, 15 Jan 2022 20:38:18: 23000000 INFO @ Sat, 15 Jan 2022 20:38:19: 18000000 INFO @ Sat, 15 Jan 2022 20:38:26: 21000000 INFO @ Sat, 15 Jan 2022 20:38:26: 19000000 INFO @ Sat, 15 Jan 2022 20:38:27: 24000000 INFO @ Sat, 15 Jan 2022 20:38:34: 20000000 INFO @ Sat, 15 Jan 2022 20:38:35: 22000000 INFO @ Sat, 15 Jan 2022 20:38:36: 25000000 INFO @ Sat, 15 Jan 2022 20:38:41: 21000000 INFO @ Sat, 15 Jan 2022 20:38:43: 23000000 INFO @ Sat, 15 Jan 2022 20:38:45: 26000000 INFO @ Sat, 15 Jan 2022 20:38:49: 22000000 INFO @ Sat, 15 Jan 2022 20:38:50: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 20:38:50: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 20:38:50: #1 total tags in treatment: 12239224 INFO @ Sat, 15 Jan 2022 20:38:50: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:38:50: #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 20:38:50: #1 tags after filtering in treatment: 4215293 INFO @ Sat, 15 Jan 2022 20:38:50: #1 Redundant rate of treatment: 0.66 INFO @ Sat, 15 Jan 2022 20:38:50: #1 finished! INFO @ Sat, 15 Jan 2022 20:38:50: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:38:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:38:50: #2 number of paired peaks: 84 WARNING @ Sat, 15 Jan 2022 20:38:50: Too few paired peaks (84) 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 20:38:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.05_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/SRX11781094/SRX11781094.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:38:52: 24000000 INFO @ Sat, 15 Jan 2022 20:38:56: 23000000 INFO @ Sat, 15 Jan 2022 20:39:01: 25000000 INFO @ Sat, 15 Jan 2022 20:39:04: 24000000 INFO @ Sat, 15 Jan 2022 20:39:09: 26000000 INFO @ Sat, 15 Jan 2022 20:39:11: 25000000 INFO @ Sat, 15 Jan 2022 20:39:14: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 20:39:14: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 20:39:14: #1 total tags in treatment: 12239224 INFO @ Sat, 15 Jan 2022 20:39:14: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:39:14: #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 20:39:14: #1 tags after filtering in treatment: 4215293 INFO @ Sat, 15 Jan 2022 20:39:14: #1 Redundant rate of treatment: 0.66 INFO @ Sat, 15 Jan 2022 20:39:14: #1 finished! INFO @ Sat, 15 Jan 2022 20:39:14: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:39:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:39:15: #2 number of paired peaks: 84 WARNING @ Sat, 15 Jan 2022 20:39:15: Too few paired peaks (84) 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 20:39:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.10_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/SRX11781094/SRX11781094.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:39:18: 26000000 INFO @ Sat, 15 Jan 2022 20:39:22: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 20:39:22: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 20:39:22: #1 total tags in treatment: 12239224 INFO @ Sat, 15 Jan 2022 20:39:22: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:39:22: #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 20:39:22: #1 tags after filtering in treatment: 4215293 INFO @ Sat, 15 Jan 2022 20:39:22: #1 Redundant rate of treatment: 0.66 INFO @ Sat, 15 Jan 2022 20:39:22: #1 finished! INFO @ Sat, 15 Jan 2022 20:39:22: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:39:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:39:22: #2 number of paired peaks: 84 WARNING @ Sat, 15 Jan 2022 20:39:22: Too few paired peaks (84) 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 20:39:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.20_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/SRX11781094/SRX11781094.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781094/SRX11781094.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling