Job ID = 14522134 SRX = SRX9786309 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13504157 spots for SRR13362173/SRR13362173.sra Written 13504157 spots for SRR13362173/SRR13362173.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: 00:18:19 13504157 reads; of these: 13504157 (100.00%) were paired; of these: 2131037 (15.78%) aligned concordantly 0 times 10364103 (76.75%) aligned concordantly exactly 1 time 1009017 (7.47%) aligned concordantly >1 times ---- 2131037 pairs aligned concordantly 0 times; of these: 193418 (9.08%) aligned discordantly 1 time ---- 1937619 pairs aligned 0 times concordantly or discordantly; of these: 3875238 mates make up the pairs; of these: 2411815 (62.24%) aligned 0 times 1274888 (32.90%) aligned exactly 1 time 188535 (4.87%) aligned >1 times 91.07% overall alignment rate Time searching: 00:18:19 Overall time: 00:18:19 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] 1010561 / 11565483 = 0.0874 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 22:42:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.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 22:42:32: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:42:32: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:42:39: 1000000 INFO @ Sat, 15 Jan 2022 22:42:46: 2000000 INFO @ Sat, 15 Jan 2022 22:42:52: 3000000 INFO @ Sat, 15 Jan 2022 22:42:59: 4000000 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 22:43:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.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 22:43:02: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:43:02: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:43:06: 5000000 INFO @ Sat, 15 Jan 2022 22:43:09: 1000000 INFO @ Sat, 15 Jan 2022 22:43:12: 6000000 INFO @ Sat, 15 Jan 2022 22:43:17: 2000000 INFO @ Sat, 15 Jan 2022 22:43:19: 7000000 INFO @ Sat, 15 Jan 2022 22:43:24: 3000000 INFO @ Sat, 15 Jan 2022 22:43:26: 8000000 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 22:43:32: 4000000 INFO @ Sat, 15 Jan 2022 22:43:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.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 22:43:32: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:43:32: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:43:33: 9000000 INFO @ Sat, 15 Jan 2022 22:43:39: 5000000 INFO @ Sat, 15 Jan 2022 22:43:40: 1000000 INFO @ Sat, 15 Jan 2022 22:43:41: 10000000 INFO @ Sat, 15 Jan 2022 22:43:46: 6000000 INFO @ Sat, 15 Jan 2022 22:43:47: 2000000 INFO @ Sat, 15 Jan 2022 22:43:48: 11000000 INFO @ Sat, 15 Jan 2022 22:43:53: 7000000 INFO @ Sat, 15 Jan 2022 22:43:55: 3000000 INFO @ Sat, 15 Jan 2022 22:43:55: 12000000 INFO @ Sat, 15 Jan 2022 22:44:01: 8000000 INFO @ Sat, 15 Jan 2022 22:44:02: 4000000 INFO @ Sat, 15 Jan 2022 22:44:03: 13000000 INFO @ Sat, 15 Jan 2022 22:44:08: 9000000 INFO @ Sat, 15 Jan 2022 22:44:09: 5000000 INFO @ Sat, 15 Jan 2022 22:44:10: 14000000 INFO @ Sat, 15 Jan 2022 22:44:16: 10000000 INFO @ Sat, 15 Jan 2022 22:44:17: 6000000 INFO @ Sat, 15 Jan 2022 22:44:18: 15000000 INFO @ Sat, 15 Jan 2022 22:44:23: 11000000 INFO @ Sat, 15 Jan 2022 22:44:24: 7000000 INFO @ Sat, 15 Jan 2022 22:44:25: 16000000 INFO @ Sat, 15 Jan 2022 22:44:31: 12000000 INFO @ Sat, 15 Jan 2022 22:44:31: 8000000 INFO @ Sat, 15 Jan 2022 22:44:32: 17000000 INFO @ Sat, 15 Jan 2022 22:44:38: 13000000 INFO @ Sat, 15 Jan 2022 22:44:38: 9000000 INFO @ Sat, 15 Jan 2022 22:44:40: 18000000 INFO @ Sat, 15 Jan 2022 22:44:45: 10000000 INFO @ Sat, 15 Jan 2022 22:44:46: 14000000 INFO @ Sat, 15 Jan 2022 22:44:47: 19000000 INFO @ Sat, 15 Jan 2022 22:44:53: 11000000 INFO @ Sat, 15 Jan 2022 22:44:53: 15000000 INFO @ Sat, 15 Jan 2022 22:44:55: 20000000 INFO @ Sat, 15 Jan 2022 22:45:00: 12000000 INFO @ Sat, 15 Jan 2022 22:45:01: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:45:03: 21000000 INFO @ Sat, 15 Jan 2022 22:45:08: 13000000 INFO @ Sat, 15 Jan 2022 22:45:08: 17000000 INFO @ Sat, 15 Jan 2022 22:45:10: 22000000 INFO @ Sat, 15 Jan 2022 22:45:15: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 22:45:15: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 22:45:15: #1 total tags in treatment: 10368918 INFO @ Sat, 15 Jan 2022 22:45:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:45:15: #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 22:45:15: #1 tags after filtering in treatment: 5965369 INFO @ Sat, 15 Jan 2022 22:45:15: #1 Redundant rate of treatment: 0.42 INFO @ Sat, 15 Jan 2022 22:45:15: #1 finished! INFO @ Sat, 15 Jan 2022 22:45:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:45:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:45:15: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:45:15: 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 22:45:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.05_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 22:45:16: 14000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:45:16: 18000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:45:23: 19000000 INFO @ Sat, 15 Jan 2022 22:45:23: 15000000 INFO @ Sat, 15 Jan 2022 22:45:30: 20000000 INFO @ Sat, 15 Jan 2022 22:45:31: 16000000 INFO @ Sat, 15 Jan 2022 22:45:37: 21000000 INFO @ Sat, 15 Jan 2022 22:45:39: 17000000 INFO @ Sat, 15 Jan 2022 22:45:44: 22000000 INFO @ Sat, 15 Jan 2022 22:45:46: 18000000 INFO @ Sat, 15 Jan 2022 22:45:48: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 22:45:48: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 22:45:48: #1 total tags in treatment: 10368918 INFO @ Sat, 15 Jan 2022 22:45:48: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:45:48: #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 22:45:48: #1 tags after filtering in treatment: 5965369 INFO @ Sat, 15 Jan 2022 22:45:48: #1 Redundant rate of treatment: 0.42 INFO @ Sat, 15 Jan 2022 22:45:48: #1 finished! INFO @ Sat, 15 Jan 2022 22:45:48: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:45:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:45:49: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:45:49: 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 22:45:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.10_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/SRX9786309/SRX9786309.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:45:54: 19000000 INFO @ Sat, 15 Jan 2022 22:46:01: 20000000 INFO @ Sat, 15 Jan 2022 22:46:08: 21000000 INFO @ Sat, 15 Jan 2022 22:46:14: 22000000 INFO @ Sat, 15 Jan 2022 22:46:18: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 22:46:18: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 22:46:18: #1 total tags in treatment: 10368918 INFO @ Sat, 15 Jan 2022 22:46:18: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:46:18: #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 22:46:19: #1 tags after filtering in treatment: 5965369 INFO @ Sat, 15 Jan 2022 22:46:19: #1 Redundant rate of treatment: 0.42 INFO @ Sat, 15 Jan 2022 22:46:19: #1 finished! INFO @ Sat, 15 Jan 2022 22:46:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:46:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:46:19: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:46:19: 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 22:46:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.20_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/SRX9786309/SRX9786309.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786309/SRX9786309.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling