Job ID = 14520903 SRX = SRX8245439 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13285586 spots for SRR11684650/SRR11684650.sra Written 13285586 spots for SRR11684650/SRR11684650.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: 00:19:33 13285586 reads; of these: 13285586 (100.00%) were paired; of these: 6822405 (51.35%) aligned concordantly 0 times 4046831 (30.46%) aligned concordantly exactly 1 time 2416350 (18.19%) aligned concordantly >1 times ---- 6822405 pairs aligned concordantly 0 times; of these: 37555 (0.55%) aligned discordantly 1 time ---- 6784850 pairs aligned 0 times concordantly or discordantly; of these: 13569700 mates make up the pairs; of these: 7414936 (54.64%) aligned 0 times 3724729 (27.45%) aligned exactly 1 time 2430035 (17.91%) aligned >1 times 72.09% overall alignment rate Time searching: 00:19:33 Overall time: 00:19:33 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 8 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] 365037 / 6499991 = 0.0562 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 20:33:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.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 20:33:18: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:33:18: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:33:24: 1000000 INFO @ Sat, 15 Jan 2022 20:33:29: 2000000 INFO @ Sat, 15 Jan 2022 20:33:35: 3000000 INFO @ Sat, 15 Jan 2022 20:33:41: 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 20:33:47: 5000000 INFO @ Sat, 15 Jan 2022 20:33:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.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 20:33:48: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:33:48: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:33:54: 6000000 INFO @ Sat, 15 Jan 2022 20:33:54: 1000000 INFO @ Sat, 15 Jan 2022 20:33:59: 2000000 INFO @ Sat, 15 Jan 2022 20:34:00: 7000000 INFO @ Sat, 15 Jan 2022 20:34:05: 3000000 INFO @ Sat, 15 Jan 2022 20:34:06: 8000000 INFO @ Sat, 15 Jan 2022 20:34:11: 4000000 INFO @ Sat, 15 Jan 2022 20:34:13: 9000000 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 20:34:17: 5000000 INFO @ Sat, 15 Jan 2022 20:34:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.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 20:34:18: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:34:18: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:34:19: 10000000 INFO @ Sat, 15 Jan 2022 20:34:23: 6000000 INFO @ Sat, 15 Jan 2022 20:34:24: 1000000 INFO @ Sat, 15 Jan 2022 20:34:25: 11000000 INFO @ Sat, 15 Jan 2022 20:34:28: 7000000 INFO @ Sat, 15 Jan 2022 20:34:31: 2000000 INFO @ Sat, 15 Jan 2022 20:34:32: 12000000 INFO @ Sat, 15 Jan 2022 20:34:34: 8000000 INFO @ Sat, 15 Jan 2022 20:34:37: 3000000 INFO @ Sat, 15 Jan 2022 20:34:38: 13000000 INFO @ Sat, 15 Jan 2022 20:34:40: 9000000 INFO @ Sat, 15 Jan 2022 20:34:43: 4000000 INFO @ Sat, 15 Jan 2022 20:34:45: 14000000 INFO @ Sat, 15 Jan 2022 20:34:46: 10000000 INFO @ Sat, 15 Jan 2022 20:34:50: 5000000 INFO @ Sat, 15 Jan 2022 20:34:51: 15000000 INFO @ Sat, 15 Jan 2022 20:34:52: 11000000 INFO @ Sat, 15 Jan 2022 20:34:56: 6000000 INFO @ Sat, 15 Jan 2022 20:34:57: 16000000 INFO @ Sat, 15 Jan 2022 20:34:58: 12000000 INFO @ Sat, 15 Jan 2022 20:35:03: 7000000 INFO @ Sat, 15 Jan 2022 20:35:04: 17000000 INFO @ Sat, 15 Jan 2022 20:35:04: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:35:09: 8000000 INFO @ Sat, 15 Jan 2022 20:35:10: 14000000 INFO @ Sat, 15 Jan 2022 20:35:11: 18000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:35:14: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:35:14: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:35:14: #1 total tags in treatment: 6102469 INFO @ Sat, 15 Jan 2022 20:35:14: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:35:14: #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 20:35:14: #1 tags after filtering in treatment: 1678130 INFO @ Sat, 15 Jan 2022 20:35:14: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 15 Jan 2022 20:35:14: #1 finished! INFO @ Sat, 15 Jan 2022 20:35:14: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:35:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:35:14: #2 number of paired peaks: 59 WARNING @ Sat, 15 Jan 2022 20:35:14: Too few paired peaks (59) 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 20:35:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.05_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/SRX8245439/SRX8245439.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:35:16: 9000000 INFO @ Sat, 15 Jan 2022 20:35:16: 15000000 INFO @ Sat, 15 Jan 2022 20:35:22: 16000000 INFO @ Sat, 15 Jan 2022 20:35:22: 10000000 INFO @ Sat, 15 Jan 2022 20:35:27: 17000000 INFO @ Sat, 15 Jan 2022 20:35:28: 11000000 INFO @ Sat, 15 Jan 2022 20:35:33: 18000000 INFO @ Sat, 15 Jan 2022 20:35:35: 12000000 INFO @ Sat, 15 Jan 2022 20:35:36: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:35:36: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:35:36: #1 total tags in treatment: 6102469 INFO @ Sat, 15 Jan 2022 20:35:36: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:35:36: #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 20:35:36: #1 tags after filtering in treatment: 1678130 INFO @ Sat, 15 Jan 2022 20:35:36: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 15 Jan 2022 20:35:36: #1 finished! INFO @ Sat, 15 Jan 2022 20:35:36: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:35:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:35:36: #2 number of paired peaks: 59 WARNING @ Sat, 15 Jan 2022 20:35:36: Too few paired peaks (59) 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 20:35:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.10_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/SRX8245439/SRX8245439.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:35:41: 13000000 INFO @ Sat, 15 Jan 2022 20:35:47: 14000000 INFO @ Sat, 15 Jan 2022 20:35:53: 15000000 INFO @ Sat, 15 Jan 2022 20:35:59: 16000000 INFO @ Sat, 15 Jan 2022 20:36:05: 17000000 INFO @ Sat, 15 Jan 2022 20:36:11: 18000000 INFO @ Sat, 15 Jan 2022 20:36:13: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:36:13: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:36:13: #1 total tags in treatment: 6102469 INFO @ Sat, 15 Jan 2022 20:36:13: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:36:13: #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 20:36:13: #1 tags after filtering in treatment: 1678130 INFO @ Sat, 15 Jan 2022 20:36:13: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 15 Jan 2022 20:36:13: #1 finished! INFO @ Sat, 15 Jan 2022 20:36:13: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:36:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:36:13: #2 number of paired peaks: 59 WARNING @ Sat, 15 Jan 2022 20:36:13: Too few paired peaks (59) 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 20:36:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.20_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/SRX8245439/SRX8245439.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245439/SRX8245439.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling