Job ID = 14521322 SRX = SRX11118941 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 9446730 spots for SRR14785640/SRR14785640.sra Written 9446730 spots for SRR14785640/SRR14785640.sra Read 8953201 spots for SRR14785641/SRR14785641.sra Written 8953201 spots for SRR14785641/SRR14785641.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: 00:20:03 18399931 reads; of these: 18399931 (100.00%) were paired; of these: 6304833 (34.27%) aligned concordantly 0 times 10568677 (57.44%) aligned concordantly exactly 1 time 1526421 (8.30%) aligned concordantly >1 times ---- 6304833 pairs aligned concordantly 0 times; of these: 1376261 (21.83%) aligned discordantly 1 time ---- 4928572 pairs aligned 0 times concordantly or discordantly; of these: 9857144 mates make up the pairs; of these: 8795722 (89.23%) aligned 0 times 488143 (4.95%) aligned exactly 1 time 573279 (5.82%) aligned >1 times 76.10% overall alignment rate Time searching: 00:20:03 Overall time: 00:20:03 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 12 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] 2106732 / 13362719 = 0.1577 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 21:25:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.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 21:25:33: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:25:33: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:25:40: 1000000 INFO @ Sat, 15 Jan 2022 21:25:47: 2000000 INFO @ Sat, 15 Jan 2022 21:25:54: 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 21:26:02: 4000000 INFO @ Sat, 15 Jan 2022 21:26:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.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 21:26:03: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:26:03: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:26:10: 5000000 INFO @ Sat, 15 Jan 2022 21:26:11: 1000000 INFO @ Sat, 15 Jan 2022 21:26:18: 6000000 INFO @ Sat, 15 Jan 2022 21:26:19: 2000000 INFO @ Sat, 15 Jan 2022 21:26:26: 7000000 INFO @ Sat, 15 Jan 2022 21:26:27: 3000000 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 21:26:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.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 21:26:33: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:26:33: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:26:34: 8000000 INFO @ Sat, 15 Jan 2022 21:26:36: 4000000 INFO @ Sat, 15 Jan 2022 21:26:41: 1000000 INFO @ Sat, 15 Jan 2022 21:26:42: 9000000 INFO @ Sat, 15 Jan 2022 21:26:44: 5000000 INFO @ Sat, 15 Jan 2022 21:26:50: 2000000 INFO @ Sat, 15 Jan 2022 21:26:50: 10000000 INFO @ Sat, 15 Jan 2022 21:26:53: 6000000 INFO @ Sat, 15 Jan 2022 21:26:58: 3000000 INFO @ Sat, 15 Jan 2022 21:26:59: 11000000 INFO @ Sat, 15 Jan 2022 21:27:01: 7000000 INFO @ Sat, 15 Jan 2022 21:27:06: 12000000 INFO @ Sat, 15 Jan 2022 21:27:06: 4000000 INFO @ Sat, 15 Jan 2022 21:27:09: 8000000 INFO @ Sat, 15 Jan 2022 21:27:14: 13000000 INFO @ Sat, 15 Jan 2022 21:27:15: 5000000 INFO @ Sat, 15 Jan 2022 21:27:17: 9000000 INFO @ Sat, 15 Jan 2022 21:27:23: 14000000 INFO @ Sat, 15 Jan 2022 21:27:23: 6000000 INFO @ Sat, 15 Jan 2022 21:27:26: 10000000 INFO @ Sat, 15 Jan 2022 21:27:31: 15000000 INFO @ Sat, 15 Jan 2022 21:27:31: 7000000 INFO @ Sat, 15 Jan 2022 21:27:34: 11000000 INFO @ Sat, 15 Jan 2022 21:27:39: 16000000 INFO @ Sat, 15 Jan 2022 21:27:40: 8000000 INFO @ Sat, 15 Jan 2022 21:27:42: 12000000 INFO @ Sat, 15 Jan 2022 21:27:48: 17000000 INFO @ Sat, 15 Jan 2022 21:27:48: 9000000 INFO @ Sat, 15 Jan 2022 21:27:51: 13000000 INFO @ Sat, 15 Jan 2022 21:27:56: 18000000 INFO @ Sat, 15 Jan 2022 21:27:57: 10000000 INFO @ Sat, 15 Jan 2022 21:27:59: 14000000 INFO @ Sat, 15 Jan 2022 21:28:05: 19000000 INFO @ Sat, 15 Jan 2022 21:28:05: 11000000 INFO @ Sat, 15 Jan 2022 21:28:08: 15000000 INFO @ Sat, 15 Jan 2022 21:28:13: 12000000 INFO @ Sat, 15 Jan 2022 21:28:14: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:28:16: 16000000 INFO @ Sat, 15 Jan 2022 21:28:22: 13000000 INFO @ Sat, 15 Jan 2022 21:28:22: 21000000 INFO @ Sat, 15 Jan 2022 21:28:25: 17000000 INFO @ Sat, 15 Jan 2022 21:28:30: 14000000 INFO @ Sat, 15 Jan 2022 21:28:30: 22000000 INFO @ Sat, 15 Jan 2022 21:28:33: 18000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:28:38: 15000000 INFO @ Sat, 15 Jan 2022 21:28:39: 23000000 INFO @ Sat, 15 Jan 2022 21:28:42: 19000000 INFO @ Sat, 15 Jan 2022 21:28:45: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 21:28:45: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 21:28:45: #1 total tags in treatment: 10177102 INFO @ Sat, 15 Jan 2022 21:28:45: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:28:45: #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 21:28:45: #1 tags after filtering in treatment: 7482223 INFO @ Sat, 15 Jan 2022 21:28:45: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 21:28:45: #1 finished! INFO @ Sat, 15 Jan 2022 21:28:45: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:28:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:28:46: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:28:46: 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 21:28:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.05_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/SRX11118941/SRX11118941.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:28:46: 16000000 INFO @ Sat, 15 Jan 2022 21:28:50: 20000000 INFO @ Sat, 15 Jan 2022 21:28:54: 17000000 INFO @ Sat, 15 Jan 2022 21:28:57: 21000000 INFO @ Sat, 15 Jan 2022 21:29:01: 18000000 INFO @ Sat, 15 Jan 2022 21:29:05: 22000000 INFO @ Sat, 15 Jan 2022 21:29:09: 19000000 INFO @ Sat, 15 Jan 2022 21:29:13: 23000000 INFO @ Sat, 15 Jan 2022 21:29:17: 20000000 INFO @ Sat, 15 Jan 2022 21:29:19: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 21:29:19: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 21:29:19: #1 total tags in treatment: 10177102 INFO @ Sat, 15 Jan 2022 21:29:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:29:19: #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 21:29:19: #1 tags after filtering in treatment: 7482223 INFO @ Sat, 15 Jan 2022 21:29:19: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 21:29:19: #1 finished! INFO @ Sat, 15 Jan 2022 21:29:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:29:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:29:20: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:29:20: 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 21:29:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.10_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/SRX11118941/SRX11118941.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:29:24: 21000000 INFO @ Sat, 15 Jan 2022 21:29:31: 22000000 INFO @ Sat, 15 Jan 2022 21:29:37: 23000000 INFO @ Sat, 15 Jan 2022 21:29:42: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 21:29:42: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 21:29:42: #1 total tags in treatment: 10177102 INFO @ Sat, 15 Jan 2022 21:29:42: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:29:42: #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 21:29:42: #1 tags after filtering in treatment: 7482223 INFO @ Sat, 15 Jan 2022 21:29:42: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 21:29:42: #1 finished! INFO @ Sat, 15 Jan 2022 21:29:42: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:29:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:29:43: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:29:43: 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 21:29:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.20_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/SRX11118941/SRX11118941.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11118941/SRX11118941.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling