Job ID = 14520791 SRX = SRX8245409 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7320371 spots for SRR11684620/SRR11684620.sra Written 7320371 spots for SRR11684620/SRR11684620.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: 00:03:50 7320371 reads; of these: 7320371 (100.00%) were paired; of these: 3389442 (46.30%) aligned concordantly 0 times 3519039 (48.07%) aligned concordantly exactly 1 time 411890 (5.63%) aligned concordantly >1 times ---- 3389442 pairs aligned concordantly 0 times; of these: 28969 (0.85%) aligned discordantly 1 time ---- 3360473 pairs aligned 0 times concordantly or discordantly; of these: 6720946 mates make up the pairs; of these: 3664124 (54.52%) aligned 0 times 2708965 (40.31%) aligned exactly 1 time 347857 (5.18%) aligned >1 times 74.97% overall alignment rate Time searching: 00:03:50 Overall time: 00:03:50 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] 37761 / 3959237 = 0.0095 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 19:59:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.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 19:59:15: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:59:15: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:59:20: 1000000 INFO @ Sat, 15 Jan 2022 19:59:24: 2000000 INFO @ Sat, 15 Jan 2022 19:59:29: 3000000 INFO @ Sat, 15 Jan 2022 19:59:33: 4000000 INFO @ Sat, 15 Jan 2022 19:59:38: 5000000 INFO @ Sat, 15 Jan 2022 19:59:42: 6000000 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 19:59:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.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 19:59:45: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:59:45: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:59:47: 7000000 INFO @ Sat, 15 Jan 2022 19:59:50: 1000000 INFO @ Sat, 15 Jan 2022 19:59:52: 8000000 INFO @ Sat, 15 Jan 2022 19:59:54: 2000000 INFO @ Sat, 15 Jan 2022 19:59:56: 9000000 INFO @ Sat, 15 Jan 2022 19:59:59: 3000000 INFO @ Sat, 15 Jan 2022 20:00:01: 10000000 INFO @ Sat, 15 Jan 2022 20:00:04: 4000000 INFO @ Sat, 15 Jan 2022 20:00:05: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:00:05: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:00:05: #1 total tags in treatment: 3893250 INFO @ Sat, 15 Jan 2022 20:00:05: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:00:05: #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 20:00:05: #1 tags after filtering in treatment: 3323067 INFO @ Sat, 15 Jan 2022 20:00:05: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 20:00:05: #1 finished! INFO @ Sat, 15 Jan 2022 20:00:05: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:00:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:00:05: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 20:00:05: Too few paired peaks (27) 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 20:00:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.05_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/SRX8245409/SRX8245409.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:00:08: 5000000 INFO @ Sat, 15 Jan 2022 20:00:12: 6000000 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 20:00:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.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 20:00:15: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:00:15: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:00:17: 7000000 INFO @ Sat, 15 Jan 2022 20:00:21: 1000000 INFO @ Sat, 15 Jan 2022 20:00:22: 8000000 INFO @ Sat, 15 Jan 2022 20:00:26: 2000000 INFO @ Sat, 15 Jan 2022 20:00:26: 9000000 INFO @ Sat, 15 Jan 2022 20:00:31: 10000000 INFO @ Sat, 15 Jan 2022 20:00:32: 3000000 INFO @ Sat, 15 Jan 2022 20:00:36: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:00:36: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:00:36: #1 total tags in treatment: 3893250 INFO @ Sat, 15 Jan 2022 20:00:36: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:00:36: #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 20:00:36: #1 tags after filtering in treatment: 3323067 INFO @ Sat, 15 Jan 2022 20:00:36: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 20:00:36: #1 finished! INFO @ Sat, 15 Jan 2022 20:00:36: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:00:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:00:36: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 20:00:36: Too few paired peaks (27) 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 20:00:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.10_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/SRX8245409/SRX8245409.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:00:38: 4000000 INFO @ Sat, 15 Jan 2022 20:00:43: 5000000 INFO @ Sat, 15 Jan 2022 20:00:49: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:00:54: 7000000 INFO @ Sat, 15 Jan 2022 20:01:00: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:01:05: 9000000 INFO @ Sat, 15 Jan 2022 20:01:10: 10000000 INFO @ Sat, 15 Jan 2022 20:01:15: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:01:15: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:01:15: #1 total tags in treatment: 3893250 INFO @ Sat, 15 Jan 2022 20:01:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:01:15: #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 20:01:15: #1 tags after filtering in treatment: 3323067 INFO @ Sat, 15 Jan 2022 20:01:15: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 20:01:15: #1 finished! INFO @ Sat, 15 Jan 2022 20:01:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:01:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:01:16: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 20:01:16: Too few paired peaks (27) 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 20:01:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.20_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/SRX8245409/SRX8245409.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245409/SRX8245409.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling