Job ID = 12531675 SRX = SRX4555047 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 14981390 spots for SRR7696745/SRR7696745.sra Written 14981390 spots for SRR7696745/SRR7696745.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: 00:17:38 14981390 reads; of these: 14981390 (100.00%) were paired; of these: 726889 (4.85%) aligned concordantly 0 times 7694795 (51.36%) aligned concordantly exactly 1 time 6559706 (43.79%) aligned concordantly >1 times ---- 726889 pairs aligned concordantly 0 times; of these: 57238 (7.87%) aligned discordantly 1 time ---- 669651 pairs aligned 0 times concordantly or discordantly; of these: 1339302 mates make up the pairs; of these: 1007674 (75.24%) aligned 0 times 172409 (12.87%) aligned exactly 1 time 159219 (11.89%) aligned >1 times 96.64% overall alignment rate Time searching: 00:17:38 Overall time: 00:17:38 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 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] 2623709 / 6619863 = 0.3963 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:32:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.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, 17 Apr 2021 09:32:24: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:32:24: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:32:31: 1000000 INFO @ Sat, 17 Apr 2021 09:32:38: 2000000 INFO @ Sat, 17 Apr 2021 09:32:45: 3000000 INFO @ Sat, 17 Apr 2021 09:32:51: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:32:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.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, 17 Apr 2021 09:32:54: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:32:54: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:32:59: 5000000 INFO @ Sat, 17 Apr 2021 09:33:02: 1000000 INFO @ Sat, 17 Apr 2021 09:33:06: 6000000 INFO @ Sat, 17 Apr 2021 09:33:10: 2000000 INFO @ Sat, 17 Apr 2021 09:33:14: 7000000 INFO @ Sat, 17 Apr 2021 09:33:17: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:33:22: 8000000 INFO @ Sat, 17 Apr 2021 09:33:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.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, 17 Apr 2021 09:33:24: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:33:24: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:33:25: 4000000 INFO @ Sat, 17 Apr 2021 09:33:30: 9000000 INFO @ Sat, 17 Apr 2021 09:33:32: 1000000 INFO @ Sat, 17 Apr 2021 09:33:33: 5000000 INFO @ Sat, 17 Apr 2021 09:33:38: 10000000 INFO @ Sat, 17 Apr 2021 09:33:40: 2000000 INFO @ Sat, 17 Apr 2021 09:33:41: 6000000 INFO @ Sat, 17 Apr 2021 09:33:45: 11000000 INFO @ Sat, 17 Apr 2021 09:33:48: 3000000 INFO @ Sat, 17 Apr 2021 09:33:49: 7000000 INFO @ Sat, 17 Apr 2021 09:33:52: 12000000 INFO @ Sat, 17 Apr 2021 09:33:55: 4000000 INFO @ Sat, 17 Apr 2021 09:33:57: 8000000 INFO @ Sat, 17 Apr 2021 09:34:00: 13000000 INFO @ Sat, 17 Apr 2021 09:34:03: 5000000 INFO @ Sat, 17 Apr 2021 09:34:05: 9000000 INFO @ Sat, 17 Apr 2021 09:34:07: 14000000 INFO @ Sat, 17 Apr 2021 09:34:11: 6000000 INFO @ Sat, 17 Apr 2021 09:34:13: 10000000 INFO @ Sat, 17 Apr 2021 09:34:15: 15000000 INFO @ Sat, 17 Apr 2021 09:34:19: 7000000 INFO @ Sat, 17 Apr 2021 09:34:20: 11000000 INFO @ Sat, 17 Apr 2021 09:34:22: 16000000 INFO @ Sat, 17 Apr 2021 09:34:27: 8000000 INFO @ Sat, 17 Apr 2021 09:34:28: 12000000 INFO @ Sat, 17 Apr 2021 09:34:29: 17000000 INFO @ Sat, 17 Apr 2021 09:34:35: 9000000 INFO @ Sat, 17 Apr 2021 09:34:35: 13000000 INFO @ Sat, 17 Apr 2021 09:34:36: 18000000 INFO @ Sat, 17 Apr 2021 09:34:43: 14000000 INFO @ Sat, 17 Apr 2021 09:34:43: 10000000 INFO @ Sat, 17 Apr 2021 09:34:44: 19000000 INFO @ Sat, 17 Apr 2021 09:34:50: 11000000 INFO @ Sat, 17 Apr 2021 09:34:50: 15000000 INFO @ Sat, 17 Apr 2021 09:34:52: 20000000 INFO @ Sat, 17 Apr 2021 09:34:57: 12000000 INFO @ Sat, 17 Apr 2021 09:34:57: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:35:00: 21000000 INFO @ Sat, 17 Apr 2021 09:35:04: 13000000 INFO @ Sat, 17 Apr 2021 09:35:05: 17000000 INFO @ Sat, 17 Apr 2021 09:35:07: 22000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:35:12: 14000000 INFO @ Sat, 17 Apr 2021 09:35:12: 18000000 INFO @ Sat, 17 Apr 2021 09:35:15: 23000000 INFO @ Sat, 17 Apr 2021 09:35:19: 15000000 INFO @ Sat, 17 Apr 2021 09:35:20: 19000000 INFO @ Sat, 17 Apr 2021 09:35:21: #1 tag size is determined as 71 bps INFO @ Sat, 17 Apr 2021 09:35:21: #1 tag size = 71 INFO @ Sat, 17 Apr 2021 09:35:21: #1 total tags in treatment: 11634023 INFO @ Sat, 17 Apr 2021 09:35:21: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:35:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:35:21: #1 tags after filtering in treatment: 3308999 INFO @ Sat, 17 Apr 2021 09:35:21: #1 Redundant rate of treatment: 0.72 INFO @ Sat, 17 Apr 2021 09:35:21: #1 finished! INFO @ Sat, 17 Apr 2021 09:35:21: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:35:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:35:21: #2 number of paired peaks: 31 WARNING @ Sat, 17 Apr 2021 09:35:21: Too few paired peaks (31) 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, 17 Apr 2021 09:35:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.05_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/SRX4555047/SRX4555047.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:35:26: 16000000 INFO @ Sat, 17 Apr 2021 09:35:28: 20000000 INFO @ Sat, 17 Apr 2021 09:35:34: 17000000 INFO @ Sat, 17 Apr 2021 09:35:35: 21000000 INFO @ Sat, 17 Apr 2021 09:35:41: 18000000 INFO @ Sat, 17 Apr 2021 09:35:43: 22000000 INFO @ Sat, 17 Apr 2021 09:35:49: 19000000 INFO @ Sat, 17 Apr 2021 09:35:51: 23000000 INFO @ Sat, 17 Apr 2021 09:35:56: #1 tag size is determined as 71 bps INFO @ Sat, 17 Apr 2021 09:35:56: #1 tag size = 71 INFO @ Sat, 17 Apr 2021 09:35:56: #1 total tags in treatment: 11634023 INFO @ Sat, 17 Apr 2021 09:35:56: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:35:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:35:56: 20000000 INFO @ Sat, 17 Apr 2021 09:35:56: #1 tags after filtering in treatment: 3308999 INFO @ Sat, 17 Apr 2021 09:35:56: #1 Redundant rate of treatment: 0.72 INFO @ Sat, 17 Apr 2021 09:35:56: #1 finished! INFO @ Sat, 17 Apr 2021 09:35:56: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:35:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:35:57: #2 number of paired peaks: 31 WARNING @ Sat, 17 Apr 2021 09:35:57: Too few paired peaks (31) 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, 17 Apr 2021 09:35:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:36:04: 21000000 INFO @ Sat, 17 Apr 2021 09:36:11: 22000000 INFO @ Sat, 17 Apr 2021 09:36:18: 23000000 INFO @ Sat, 17 Apr 2021 09:36:23: #1 tag size is determined as 71 bps INFO @ Sat, 17 Apr 2021 09:36:23: #1 tag size = 71 INFO @ Sat, 17 Apr 2021 09:36:23: #1 total tags in treatment: 11634023 INFO @ Sat, 17 Apr 2021 09:36:23: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:36:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:36:23: #1 tags after filtering in treatment: 3308999 INFO @ Sat, 17 Apr 2021 09:36:23: #1 Redundant rate of treatment: 0.72 INFO @ Sat, 17 Apr 2021 09:36:23: #1 finished! INFO @ Sat, 17 Apr 2021 09:36:23: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:36:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:36:24: #2 number of paired peaks: 31 WARNING @ Sat, 17 Apr 2021 09:36:24: Too few paired peaks (31) 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, 17 Apr 2021 09:36:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.20_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/SRX4555047/SRX4555047.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555047/SRX4555047.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling