Job ID = 14520542 SRX = SRX3659074 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 11778291 spots for SRR6682789/SRR6682789.sra Written 11778291 spots for SRR6682789/SRR6682789.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: 00:15:38 11778291 reads; of these: 11778291 (100.00%) were paired; of these: 304501 (2.59%) aligned concordantly 0 times 10584404 (89.86%) aligned concordantly exactly 1 time 889386 (7.55%) aligned concordantly >1 times ---- 304501 pairs aligned concordantly 0 times; of these: 74483 (24.46%) aligned discordantly 1 time ---- 230018 pairs aligned 0 times concordantly or discordantly; of these: 460036 mates make up the pairs; of these: 294541 (64.03%) aligned 0 times 140303 (30.50%) aligned exactly 1 time 25192 (5.48%) aligned >1 times 98.75% overall alignment rate Time searching: 00:15:38 Overall time: 00:15:38 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] 1704406 / 11325693 = 0.1505 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 19:53:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.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 19:53:45: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:53:45: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:53:55: 1000000 INFO @ Sat, 15 Jan 2022 19:54:03: 2000000 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 19:54:13: 3000000 INFO @ Sat, 15 Jan 2022 19:54:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.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 19:54:15: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:54:15: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:54:23: 4000000 INFO @ Sat, 15 Jan 2022 19:54:25: 1000000 INFO @ Sat, 15 Jan 2022 19:54:34: 5000000 INFO @ Sat, 15 Jan 2022 19:54:36: 2000000 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 19:54:44: 6000000 INFO @ Sat, 15 Jan 2022 19:54:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.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 19:54:45: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:54:45: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:54:46: 3000000 INFO @ Sat, 15 Jan 2022 19:54:54: 7000000 INFO @ Sat, 15 Jan 2022 19:54:56: 1000000 INFO @ Sat, 15 Jan 2022 19:54:57: 4000000 INFO @ Sat, 15 Jan 2022 19:55:06: 8000000 INFO @ Sat, 15 Jan 2022 19:55:07: 2000000 INFO @ Sat, 15 Jan 2022 19:55:08: 5000000 INFO @ Sat, 15 Jan 2022 19:55:16: 9000000 INFO @ Sat, 15 Jan 2022 19:55:17: 3000000 INFO @ Sat, 15 Jan 2022 19:55:18: 6000000 INFO @ Sat, 15 Jan 2022 19:55:27: 10000000 INFO @ Sat, 15 Jan 2022 19:55:28: 4000000 INFO @ Sat, 15 Jan 2022 19:55:30: 7000000 INFO @ Sat, 15 Jan 2022 19:55:39: 11000000 INFO @ Sat, 15 Jan 2022 19:55:40: 5000000 INFO @ Sat, 15 Jan 2022 19:55:41: 8000000 INFO @ Sat, 15 Jan 2022 19:55:49: 12000000 INFO @ Sat, 15 Jan 2022 19:55:50: 6000000 INFO @ Sat, 15 Jan 2022 19:55:51: 9000000 INFO @ Sat, 15 Jan 2022 19:55:59: 13000000 INFO @ Sat, 15 Jan 2022 19:56:01: 7000000 INFO @ Sat, 15 Jan 2022 19:56:02: 10000000 INFO @ Sat, 15 Jan 2022 19:56:10: 14000000 INFO @ Sat, 15 Jan 2022 19:56:12: 8000000 INFO @ Sat, 15 Jan 2022 19:56:13: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:56:21: 15000000 INFO @ Sat, 15 Jan 2022 19:56:23: 9000000 INFO @ Sat, 15 Jan 2022 19:56:24: 12000000 INFO @ Sat, 15 Jan 2022 19:56:32: 16000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:56:34: 10000000 INFO @ Sat, 15 Jan 2022 19:56:35: 13000000 INFO @ Sat, 15 Jan 2022 19:56:43: 17000000 INFO @ Sat, 15 Jan 2022 19:56:45: 11000000 INFO @ Sat, 15 Jan 2022 19:56:46: 14000000 INFO @ Sat, 15 Jan 2022 19:56:54: 18000000 INFO @ Sat, 15 Jan 2022 19:56:56: 12000000 INFO @ Sat, 15 Jan 2022 19:56:57: 15000000 INFO @ Sat, 15 Jan 2022 19:57:04: 19000000 INFO @ Sat, 15 Jan 2022 19:57:07: 13000000 INFO @ Sat, 15 Jan 2022 19:57:08: 16000000 INFO @ Sat, 15 Jan 2022 19:57:13: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:57:13: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:57:13: #1 total tags in treatment: 9770701 INFO @ Sat, 15 Jan 2022 19:57:13: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:57:13: #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 19:57:14: #1 tags after filtering in treatment: 5422023 INFO @ Sat, 15 Jan 2022 19:57:14: #1 Redundant rate of treatment: 0.45 INFO @ Sat, 15 Jan 2022 19:57:14: #1 finished! INFO @ Sat, 15 Jan 2022 19:57:14: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:57:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:57:14: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:57:14: 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 19:57:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.05_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/SRX3659074/SRX3659074.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:57:17: 14000000 INFO @ Sat, 15 Jan 2022 19:57:18: 17000000 INFO @ Sat, 15 Jan 2022 19:57:28: 15000000 INFO @ Sat, 15 Jan 2022 19:57:29: 18000000 INFO @ Sat, 15 Jan 2022 19:57:40: 19000000 INFO @ Sat, 15 Jan 2022 19:57:40: 16000000 INFO @ Sat, 15 Jan 2022 19:57:49: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:57:49: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:57:49: #1 total tags in treatment: 9770701 INFO @ Sat, 15 Jan 2022 19:57:49: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:57:49: #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 19:57:49: #1 tags after filtering in treatment: 5422023 INFO @ Sat, 15 Jan 2022 19:57:49: #1 Redundant rate of treatment: 0.45 INFO @ Sat, 15 Jan 2022 19:57:49: #1 finished! INFO @ Sat, 15 Jan 2022 19:57:49: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:57:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:57:49: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:57:49: 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 19:57:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.10_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/SRX3659074/SRX3659074.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:57:50: 17000000 INFO @ Sat, 15 Jan 2022 19:57:59: 18000000 INFO @ Sat, 15 Jan 2022 19:58:06: 19000000 INFO @ Sat, 15 Jan 2022 19:58:13: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:58:13: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:58:13: #1 total tags in treatment: 9770701 INFO @ Sat, 15 Jan 2022 19:58:13: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:58:13: #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 19:58:14: #1 tags after filtering in treatment: 5422023 INFO @ Sat, 15 Jan 2022 19:58:14: #1 Redundant rate of treatment: 0.45 INFO @ Sat, 15 Jan 2022 19:58:14: #1 finished! INFO @ Sat, 15 Jan 2022 19:58:14: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:58:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:58:14: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:58:14: 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 19:58:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.20_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/SRX3659074/SRX3659074.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659074/SRX3659074.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling