Job ID = 14521991 SRX = SRX7756560 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 12351976 spots for SRR11119560/SRR11119560.sra Written 12351976 spots for SRR11119560/SRR11119560.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: 00:13:13 12351976 reads; of these: 12351976 (100.00%) were paired; of these: 1993058 (16.14%) aligned concordantly 0 times 9647043 (78.10%) aligned concordantly exactly 1 time 711875 (5.76%) aligned concordantly >1 times ---- 1993058 pairs aligned concordantly 0 times; of these: 1015658 (50.96%) aligned discordantly 1 time ---- 977400 pairs aligned 0 times concordantly or discordantly; of these: 1954800 mates make up the pairs; of these: 1643164 (84.06%) aligned 0 times 129961 (6.65%) aligned exactly 1 time 181675 (9.29%) aligned >1 times 93.35% overall alignment rate Time searching: 00:13:13 Overall time: 00:13:13 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] 1640033 / 11355681 = 0.1444 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 22:24:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.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 22:24:18: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:24:18: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:24:28: 1000000 INFO @ Sat, 15 Jan 2022 22:24:38: 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 22:24:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.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 22:24:48: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:24:48: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:24:49: 3000000 INFO @ Sat, 15 Jan 2022 22:24:58: 1000000 INFO @ Sat, 15 Jan 2022 22:25:00: 4000000 INFO @ Sat, 15 Jan 2022 22:25:09: 2000000 INFO @ Sat, 15 Jan 2022 22:25:10: 5000000 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 22:25:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.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 22:25:18: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:25:18: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:25:19: 3000000 INFO @ Sat, 15 Jan 2022 22:25:21: 6000000 INFO @ Sat, 15 Jan 2022 22:25:27: 1000000 INFO @ Sat, 15 Jan 2022 22:25:30: 4000000 INFO @ Sat, 15 Jan 2022 22:25:31: 7000000 INFO @ Sat, 15 Jan 2022 22:25:36: 2000000 INFO @ Sat, 15 Jan 2022 22:25:41: 5000000 INFO @ Sat, 15 Jan 2022 22:25:42: 8000000 INFO @ Sat, 15 Jan 2022 22:25:45: 3000000 INFO @ Sat, 15 Jan 2022 22:25:51: 6000000 INFO @ Sat, 15 Jan 2022 22:25:53: 9000000 INFO @ Sat, 15 Jan 2022 22:25:54: 4000000 INFO @ Sat, 15 Jan 2022 22:26:02: 7000000 INFO @ Sat, 15 Jan 2022 22:26:03: 5000000 INFO @ Sat, 15 Jan 2022 22:26:03: 10000000 INFO @ Sat, 15 Jan 2022 22:26:13: 6000000 INFO @ Sat, 15 Jan 2022 22:26:13: 8000000 INFO @ Sat, 15 Jan 2022 22:26:14: 11000000 INFO @ Sat, 15 Jan 2022 22:26:22: 7000000 INFO @ Sat, 15 Jan 2022 22:26:23: 9000000 INFO @ Sat, 15 Jan 2022 22:26:25: 12000000 INFO @ Sat, 15 Jan 2022 22:26:31: 8000000 INFO @ Sat, 15 Jan 2022 22:26:34: 10000000 INFO @ Sat, 15 Jan 2022 22:26:35: 13000000 INFO @ Sat, 15 Jan 2022 22:26:40: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:26:45: 11000000 INFO @ Sat, 15 Jan 2022 22:26:46: 14000000 INFO @ Sat, 15 Jan 2022 22:26:49: 10000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:26:55: 12000000 INFO @ Sat, 15 Jan 2022 22:26:57: 15000000 INFO @ Sat, 15 Jan 2022 22:26:58: 11000000 INFO @ Sat, 15 Jan 2022 22:27:06: 13000000 INFO @ Sat, 15 Jan 2022 22:27:07: 12000000 INFO @ Sat, 15 Jan 2022 22:27:08: 16000000 INFO @ Sat, 15 Jan 2022 22:27:16: 13000000 INFO @ Sat, 15 Jan 2022 22:27:17: 14000000 INFO @ Sat, 15 Jan 2022 22:27:18: 17000000 INFO @ Sat, 15 Jan 2022 22:27:25: 14000000 INFO @ Sat, 15 Jan 2022 22:27:28: 15000000 INFO @ Sat, 15 Jan 2022 22:27:28: 18000000 INFO @ Sat, 15 Jan 2022 22:27:34: 15000000 INFO @ Sat, 15 Jan 2022 22:27:38: 19000000 INFO @ Sat, 15 Jan 2022 22:27:38: 16000000 INFO @ Sat, 15 Jan 2022 22:27:44: 16000000 INFO @ Sat, 15 Jan 2022 22:27:46: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 22:27:46: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 22:27:46: #1 total tags in treatment: 8835658 INFO @ Sat, 15 Jan 2022 22:27:46: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:27:46: #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 22:27:46: #1 tags after filtering in treatment: 6602992 INFO @ Sat, 15 Jan 2022 22:27:46: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 22:27:46: #1 finished! INFO @ Sat, 15 Jan 2022 22:27:46: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:27:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:27:47: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:27:47: 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 22:27:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.05_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/SRX7756560/SRX7756560.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:27:49: 17000000 INFO @ Sat, 15 Jan 2022 22:27:53: 17000000 INFO @ Sat, 15 Jan 2022 22:27:59: 18000000 INFO @ Sat, 15 Jan 2022 22:28:02: 18000000 INFO @ Sat, 15 Jan 2022 22:28:10: 19000000 INFO @ Sat, 15 Jan 2022 22:28:12: 19000000 INFO @ Sat, 15 Jan 2022 22:28:18: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 22:28:18: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 22:28:18: #1 total tags in treatment: 8835658 INFO @ Sat, 15 Jan 2022 22:28:18: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:28:18: #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 22:28:18: #1 tags after filtering in treatment: 6602992 INFO @ Sat, 15 Jan 2022 22:28:18: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 22:28:18: #1 finished! INFO @ Sat, 15 Jan 2022 22:28:18: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:28:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:28:19: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:28:19: 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 22:28:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.10_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/SRX7756560/SRX7756560.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:28:19: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 22:28:19: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 22:28:19: #1 total tags in treatment: 8835658 INFO @ Sat, 15 Jan 2022 22:28:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:28:19: #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 22:28:19: #1 tags after filtering in treatment: 6602992 INFO @ Sat, 15 Jan 2022 22:28:19: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 22:28:19: #1 finished! INFO @ Sat, 15 Jan 2022 22:28:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:28:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:28:20: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:28:20: 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 22:28:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.20_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/SRX7756560/SRX7756560.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756560/SRX7756560.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling