Job ID = 14520605 SRX = SRX3659093 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6823964 spots for SRR6682809/SRR6682809.sra Written 6823964 spots for SRR6682809/SRR6682809.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: 00:06:15 6823964 reads; of these: 6823964 (100.00%) were paired; of these: 729938 (10.70%) aligned concordantly 0 times 5155489 (75.55%) aligned concordantly exactly 1 time 938537 (13.75%) aligned concordantly >1 times ---- 729938 pairs aligned concordantly 0 times; of these: 65709 (9.00%) aligned discordantly 1 time ---- 664229 pairs aligned 0 times concordantly or discordantly; of these: 1328458 mates make up the pairs; of these: 1234620 (92.94%) aligned 0 times 55957 (4.21%) aligned exactly 1 time 37881 (2.85%) aligned >1 times 90.95% overall alignment rate Time searching: 00:06:15 Overall time: 00:06:15 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] 321083 / 6144549 = 0.0523 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 19:41:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.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 19:41:16: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:41:16: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:41:22: 1000000 INFO @ Sat, 15 Jan 2022 19:41:28: 2000000 INFO @ Sat, 15 Jan 2022 19:41:35: 3000000 INFO @ Sat, 15 Jan 2022 19:41:41: 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 19:41:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.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 19:41:46: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:41:46: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:41:47: 5000000 INFO @ Sat, 15 Jan 2022 19:41:52: 1000000 INFO @ Sat, 15 Jan 2022 19:41:54: 6000000 INFO @ Sat, 15 Jan 2022 19:41:58: 2000000 INFO @ Sat, 15 Jan 2022 19:42:00: 7000000 INFO @ Sat, 15 Jan 2022 19:42:03: 3000000 INFO @ Sat, 15 Jan 2022 19:42:06: 8000000 INFO @ Sat, 15 Jan 2022 19:42:09: 4000000 INFO @ Sat, 15 Jan 2022 19:42:13: 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 19:42:15: 5000000 INFO @ Sat, 15 Jan 2022 19:42:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.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 19:42:16: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:42:16: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:42:19: 10000000 INFO @ Sat, 15 Jan 2022 19:42:20: 6000000 INFO @ Sat, 15 Jan 2022 19:42:22: 1000000 INFO @ Sat, 15 Jan 2022 19:42:26: 11000000 INFO @ Sat, 15 Jan 2022 19:42:26: 7000000 INFO @ Sat, 15 Jan 2022 19:42:28: 2000000 INFO @ Sat, 15 Jan 2022 19:42:31: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 19:42:31: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 19:42:31: #1 total tags in treatment: 5774185 INFO @ Sat, 15 Jan 2022 19:42:31: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:42:31: #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 19:42:31: #1 tags after filtering in treatment: 4644668 INFO @ Sat, 15 Jan 2022 19:42:31: #1 Redundant rate of treatment: 0.20 INFO @ Sat, 15 Jan 2022 19:42:31: #1 finished! INFO @ Sat, 15 Jan 2022 19:42:31: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:42:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:42:31: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 19:42:31: 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 19:42:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.05_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/SRX3659093/SRX3659093.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:42:32: 8000000 INFO @ Sat, 15 Jan 2022 19:42:33: 3000000 INFO @ Sat, 15 Jan 2022 19:42:38: 9000000 INFO @ Sat, 15 Jan 2022 19:42:39: 4000000 INFO @ Sat, 15 Jan 2022 19:42:44: 10000000 INFO @ Sat, 15 Jan 2022 19:42:44: 5000000 INFO @ Sat, 15 Jan 2022 19:42:49: 11000000 INFO @ Sat, 15 Jan 2022 19:42:50: 6000000 INFO @ Sat, 15 Jan 2022 19:42:54: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 19:42:54: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 19:42:54: #1 total tags in treatment: 5774185 INFO @ Sat, 15 Jan 2022 19:42:54: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:42:54: #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 19:42:54: #1 tags after filtering in treatment: 4644668 INFO @ Sat, 15 Jan 2022 19:42:54: #1 Redundant rate of treatment: 0.20 INFO @ Sat, 15 Jan 2022 19:42:54: #1 finished! INFO @ Sat, 15 Jan 2022 19:42:54: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:42:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:42:54: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 19:42:54: 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 19:42:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.10_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/SRX3659093/SRX3659093.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:42:56: 7000000 INFO @ Sat, 15 Jan 2022 19:43:02: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:43:07: 9000000 INFO @ Sat, 15 Jan 2022 19:43:12: 10000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:43:18: 11000000 INFO @ Sat, 15 Jan 2022 19:43:22: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 19:43:22: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 19:43:22: #1 total tags in treatment: 5774185 INFO @ Sat, 15 Jan 2022 19:43:22: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:43:22: #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 19:43:22: #1 tags after filtering in treatment: 4644668 INFO @ Sat, 15 Jan 2022 19:43:22: #1 Redundant rate of treatment: 0.20 INFO @ Sat, 15 Jan 2022 19:43:22: #1 finished! INFO @ Sat, 15 Jan 2022 19:43:22: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:43:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:43:22: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 19:43:22: 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 19:43:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.20_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/SRX3659093/SRX3659093.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659093/SRX3659093.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling