Job ID = 12531694 SRX = SRX4555063 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 12393876 spots for SRR7696766/SRR7696766.sra Written 12393876 spots for SRR7696766/SRR7696766.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: 00:15:00 12393876 reads; of these: 12393876 (100.00%) were paired; of these: 723801 (5.84%) aligned concordantly 0 times 6435536 (51.93%) aligned concordantly exactly 1 time 5234539 (42.23%) aligned concordantly >1 times ---- 723801 pairs aligned concordantly 0 times; of these: 45038 (6.22%) aligned discordantly 1 time ---- 678763 pairs aligned 0 times concordantly or discordantly; of these: 1357526 mates make up the pairs; of these: 1076734 (79.32%) aligned 0 times 155950 (11.49%) aligned exactly 1 time 124842 (9.20%) aligned >1 times 95.66% overall alignment rate Time searching: 00:15:00 Overall time: 00:15:00 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] 1860407 / 5241422 = 0.3549 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 09:36:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.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 09:36:10: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:36:10: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:36:19: 1000000 INFO @ Sat, 17 Apr 2021 09:36:27: 2000000 INFO @ Sat, 17 Apr 2021 09:36:35: 3000000 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 09:36:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.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 09:36:40: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:36:40: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:36:44: 4000000 INFO @ Sat, 17 Apr 2021 09:36:50: 1000000 INFO @ Sat, 17 Apr 2021 09:36:54: 5000000 INFO @ Sat, 17 Apr 2021 09:37:01: 2000000 INFO @ Sat, 17 Apr 2021 09:37:04: 6000000 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 09:37:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.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 09:37:10: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:37:10: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:37:11: 3000000 INFO @ Sat, 17 Apr 2021 09:37:14: 7000000 INFO @ Sat, 17 Apr 2021 09:37:21: 1000000 INFO @ Sat, 17 Apr 2021 09:37:21: 4000000 INFO @ Sat, 17 Apr 2021 09:37:25: 8000000 INFO @ Sat, 17 Apr 2021 09:37:31: 5000000 INFO @ Sat, 17 Apr 2021 09:37:32: 2000000 INFO @ Sat, 17 Apr 2021 09:37:35: 9000000 INFO @ Sat, 17 Apr 2021 09:37:42: 6000000 INFO @ Sat, 17 Apr 2021 09:37:43: 3000000 INFO @ Sat, 17 Apr 2021 09:37:44: 10000000 INFO @ Sat, 17 Apr 2021 09:37:52: 7000000 INFO @ Sat, 17 Apr 2021 09:37:53: 4000000 INFO @ Sat, 17 Apr 2021 09:37:53: 11000000 INFO @ Sat, 17 Apr 2021 09:38:02: 8000000 INFO @ Sat, 17 Apr 2021 09:38:03: 12000000 INFO @ Sat, 17 Apr 2021 09:38:04: 5000000 INFO @ Sat, 17 Apr 2021 09:38:12: 9000000 INFO @ Sat, 17 Apr 2021 09:38:13: 13000000 INFO @ Sat, 17 Apr 2021 09:38:15: 6000000 INFO @ Sat, 17 Apr 2021 09:38:22: 14000000 INFO @ Sat, 17 Apr 2021 09:38:22: 10000000 INFO @ Sat, 17 Apr 2021 09:38:26: 7000000 INFO @ Sat, 17 Apr 2021 09:38:31: 15000000 INFO @ Sat, 17 Apr 2021 09:38:32: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:38:36: 8000000 INFO @ Sat, 17 Apr 2021 09:38:41: 16000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:38:42: 12000000 INFO @ Sat, 17 Apr 2021 09:38:46: 9000000 INFO @ Sat, 17 Apr 2021 09:38:52: 17000000 INFO @ Sat, 17 Apr 2021 09:38:52: 13000000 INFO @ Sat, 17 Apr 2021 09:38:55: 10000000 INFO @ Sat, 17 Apr 2021 09:39:02: 14000000 INFO @ Sat, 17 Apr 2021 09:39:02: 18000000 INFO @ Sat, 17 Apr 2021 09:39:05: 11000000 INFO @ Sat, 17 Apr 2021 09:39:11: 15000000 INFO @ Sat, 17 Apr 2021 09:39:12: 19000000 INFO @ Sat, 17 Apr 2021 09:39:15: 12000000 INFO @ Sat, 17 Apr 2021 09:39:22: 16000000 INFO @ Sat, 17 Apr 2021 09:39:22: #1 tag size is determined as 78 bps INFO @ Sat, 17 Apr 2021 09:39:22: #1 tag size = 78 INFO @ Sat, 17 Apr 2021 09:39:22: #1 total tags in treatment: 9811992 INFO @ Sat, 17 Apr 2021 09:39:22: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:39:22: #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 09:39:22: #1 tags after filtering in treatment: 2684513 INFO @ Sat, 17 Apr 2021 09:39:22: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 09:39:22: #1 finished! INFO @ Sat, 17 Apr 2021 09:39:22: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:39:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:39:23: #2 number of paired peaks: 68 WARNING @ Sat, 17 Apr 2021 09:39:23: Too few paired peaks (68) 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 09:39:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.05_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/SRX4555063/SRX4555063.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:39:25: 13000000 INFO @ Sat, 17 Apr 2021 09:39:33: 17000000 INFO @ Sat, 17 Apr 2021 09:39:35: 14000000 INFO @ Sat, 17 Apr 2021 09:39:43: 18000000 INFO @ Sat, 17 Apr 2021 09:39:44: 15000000 INFO @ Sat, 17 Apr 2021 09:39:54: 19000000 INFO @ Sat, 17 Apr 2021 09:39:54: 16000000 INFO @ Sat, 17 Apr 2021 09:40:05: 17000000 INFO @ Sat, 17 Apr 2021 09:40:05: #1 tag size is determined as 78 bps INFO @ Sat, 17 Apr 2021 09:40:05: #1 tag size = 78 INFO @ Sat, 17 Apr 2021 09:40:05: #1 total tags in treatment: 9811992 INFO @ Sat, 17 Apr 2021 09:40:05: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:40:05: #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 09:40:05: #1 tags after filtering in treatment: 2684513 INFO @ Sat, 17 Apr 2021 09:40:05: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 09:40:05: #1 finished! INFO @ Sat, 17 Apr 2021 09:40:05: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:40:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:40:05: #2 number of paired peaks: 68 WARNING @ Sat, 17 Apr 2021 09:40:05: Too few paired peaks (68) 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 09:40:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.10_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/SRX4555063/SRX4555063.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:40:14: 18000000 INFO @ Sat, 17 Apr 2021 09:40:23: 19000000 INFO @ Sat, 17 Apr 2021 09:40:32: #1 tag size is determined as 78 bps INFO @ Sat, 17 Apr 2021 09:40:32: #1 tag size = 78 INFO @ Sat, 17 Apr 2021 09:40:32: #1 total tags in treatment: 9811992 INFO @ Sat, 17 Apr 2021 09:40:32: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:40:32: #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 09:40:33: #1 tags after filtering in treatment: 2684513 INFO @ Sat, 17 Apr 2021 09:40:33: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 09:40:33: #1 finished! INFO @ Sat, 17 Apr 2021 09:40:33: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:40:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:40:33: #2 number of paired peaks: 68 WARNING @ Sat, 17 Apr 2021 09:40:33: Too few paired peaks (68) 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 09:40:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.20_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/SRX4555063/SRX4555063.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555063/SRX4555063.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling