Job ID = 10224015 SRX = SRX8754204 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 16679224 spots for SRR12246275/SRR12246275.sra Written 16679224 spots for SRR12246275/SRR12246275.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: 00:08:21 16679224 reads; of these: 16679224 (100.00%) were paired; of these: 941169 (5.64%) aligned concordantly 0 times 13144634 (78.81%) aligned concordantly exactly 1 time 2593421 (15.55%) aligned concordantly >1 times ---- 941169 pairs aligned concordantly 0 times; of these: 134507 (14.29%) aligned discordantly 1 time ---- 806662 pairs aligned 0 times concordantly or discordantly; of these: 1613324 mates make up the pairs; of these: 1328698 (82.36%) aligned 0 times 175033 (10.85%) aligned exactly 1 time 109593 (6.79%) aligned >1 times 96.02% overall alignment rate Time searching: 00:08:21 Overall time: 00:08:21 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] 3583951 / 15819302 = 0.2266 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 09:24:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.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 @ Fri, 16 Oct 2020 09:24:10: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:24:10: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:24:17: 1000000 INFO @ Fri, 16 Oct 2020 09:24:23: 2000000 INFO @ Fri, 16 Oct 2020 09:24:29: 3000000 INFO @ Fri, 16 Oct 2020 09:24:35: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 09:24:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.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 @ Fri, 16 Oct 2020 09:24:40: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:24:40: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:24:42: 5000000 INFO @ Fri, 16 Oct 2020 09:24:46: 1000000 INFO @ Fri, 16 Oct 2020 09:24:48: 6000000 INFO @ Fri, 16 Oct 2020 09:24:52: 2000000 INFO @ Fri, 16 Oct 2020 09:24:55: 7000000 INFO @ Fri, 16 Oct 2020 09:24:58: 3000000 INFO @ Fri, 16 Oct 2020 09:25:02: 8000000 INFO @ Fri, 16 Oct 2020 09:25:04: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 09:25:09: 9000000 INFO @ Fri, 16 Oct 2020 09:25:10: 5000000 INFO @ Fri, 16 Oct 2020 09:25:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.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 @ Fri, 16 Oct 2020 09:25:10: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:25:10: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:25:16: 10000000 INFO @ Fri, 16 Oct 2020 09:25:16: 6000000 INFO @ Fri, 16 Oct 2020 09:25:16: 1000000 INFO @ Fri, 16 Oct 2020 09:25:22: 7000000 INFO @ Fri, 16 Oct 2020 09:25:22: 2000000 INFO @ Fri, 16 Oct 2020 09:25:23: 11000000 INFO @ Fri, 16 Oct 2020 09:25:28: 8000000 INFO @ Fri, 16 Oct 2020 09:25:28: 3000000 INFO @ Fri, 16 Oct 2020 09:25:30: 12000000 INFO @ Fri, 16 Oct 2020 09:25:34: 4000000 INFO @ Fri, 16 Oct 2020 09:25:34: 9000000 INFO @ Fri, 16 Oct 2020 09:25:36: 13000000 INFO @ Fri, 16 Oct 2020 09:25:40: 5000000 INFO @ Fri, 16 Oct 2020 09:25:41: 10000000 INFO @ Fri, 16 Oct 2020 09:25:43: 14000000 INFO @ Fri, 16 Oct 2020 09:25:46: 6000000 INFO @ Fri, 16 Oct 2020 09:25:46: 11000000 INFO @ Fri, 16 Oct 2020 09:25:50: 15000000 INFO @ Fri, 16 Oct 2020 09:25:52: 7000000 INFO @ Fri, 16 Oct 2020 09:25:52: 12000000 INFO @ Fri, 16 Oct 2020 09:25:56: 16000000 INFO @ Fri, 16 Oct 2020 09:25:58: 8000000 INFO @ Fri, 16 Oct 2020 09:25:58: 13000000 INFO @ Fri, 16 Oct 2020 09:26:03: 17000000 INFO @ Fri, 16 Oct 2020 09:26:04: 9000000 INFO @ Fri, 16 Oct 2020 09:26:04: 14000000 INFO @ Fri, 16 Oct 2020 09:26:10: 18000000 INFO @ Fri, 16 Oct 2020 09:26:10: 10000000 INFO @ Fri, 16 Oct 2020 09:26:10: 15000000 INFO @ Fri, 16 Oct 2020 09:26:16: 11000000 INFO @ Fri, 16 Oct 2020 09:26:16: 16000000 INFO @ Fri, 16 Oct 2020 09:26:16: 19000000 INFO @ Fri, 16 Oct 2020 09:26:21: 12000000 INFO @ Fri, 16 Oct 2020 09:26:22: 17000000 INFO @ Fri, 16 Oct 2020 09:26:23: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 09:26:27: 13000000 INFO @ Fri, 16 Oct 2020 09:26:27: 18000000 INFO @ Fri, 16 Oct 2020 09:26:29: 21000000 INFO @ Fri, 16 Oct 2020 09:26:33: 14000000 INFO @ Fri, 16 Oct 2020 09:26:33: 19000000 INFO @ Fri, 16 Oct 2020 09:26:36: 22000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 09:26:39: 15000000 INFO @ Fri, 16 Oct 2020 09:26:39: 20000000 INFO @ Fri, 16 Oct 2020 09:26:42: 23000000 INFO @ Fri, 16 Oct 2020 09:26:45: 16000000 INFO @ Fri, 16 Oct 2020 09:26:45: 21000000 INFO @ Fri, 16 Oct 2020 09:26:49: 24000000 INFO @ Fri, 16 Oct 2020 09:26:51: 17000000 INFO @ Fri, 16 Oct 2020 09:26:51: 22000000 INFO @ Fri, 16 Oct 2020 09:26:55: #1 tag size is determined as 51 bps INFO @ Fri, 16 Oct 2020 09:26:55: #1 tag size = 51 INFO @ Fri, 16 Oct 2020 09:26:55: #1 total tags in treatment: 12166091 INFO @ Fri, 16 Oct 2020 09:26:55: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:26:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:26:55: #1 tags after filtering in treatment: 5768982 INFO @ Fri, 16 Oct 2020 09:26:55: #1 Redundant rate of treatment: 0.53 INFO @ Fri, 16 Oct 2020 09:26:55: #1 finished! INFO @ Fri, 16 Oct 2020 09:26:55: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:26:55: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:26:55: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:26:55: 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 @ Fri, 16 Oct 2020 09:26:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.05_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/SRX8754204/SRX8754204.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:26:57: 18000000 INFO @ Fri, 16 Oct 2020 09:26:57: 23000000 INFO @ Fri, 16 Oct 2020 09:27:02: 24000000 INFO @ Fri, 16 Oct 2020 09:27:02: 19000000 INFO @ Fri, 16 Oct 2020 09:27:07: #1 tag size is determined as 51 bps INFO @ Fri, 16 Oct 2020 09:27:07: #1 tag size = 51 INFO @ Fri, 16 Oct 2020 09:27:07: #1 total tags in treatment: 12166091 INFO @ Fri, 16 Oct 2020 09:27:07: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:27:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:27:07: #1 tags after filtering in treatment: 5768982 INFO @ Fri, 16 Oct 2020 09:27:07: #1 Redundant rate of treatment: 0.53 INFO @ Fri, 16 Oct 2020 09:27:07: #1 finished! INFO @ Fri, 16 Oct 2020 09:27:07: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:27:07: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:27:08: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:27:08: 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 @ Fri, 16 Oct 2020 09:27:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.10_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/SRX8754204/SRX8754204.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:27:08: 20000000 INFO @ Fri, 16 Oct 2020 09:27:13: 21000000 INFO @ Fri, 16 Oct 2020 09:27:19: 22000000 INFO @ Fri, 16 Oct 2020 09:27:24: 23000000 INFO @ Fri, 16 Oct 2020 09:27:29: 24000000 INFO @ Fri, 16 Oct 2020 09:27:34: #1 tag size is determined as 51 bps INFO @ Fri, 16 Oct 2020 09:27:34: #1 tag size = 51 INFO @ Fri, 16 Oct 2020 09:27:34: #1 total tags in treatment: 12166091 INFO @ Fri, 16 Oct 2020 09:27:34: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:27:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:27:34: #1 tags after filtering in treatment: 5768982 INFO @ Fri, 16 Oct 2020 09:27:34: #1 Redundant rate of treatment: 0.53 INFO @ Fri, 16 Oct 2020 09:27:34: #1 finished! INFO @ Fri, 16 Oct 2020 09:27:34: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:27:34: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:27:34: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:27:34: 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 @ Fri, 16 Oct 2020 09:27:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.20_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/SRX8754204/SRX8754204.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754204/SRX8754204.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling