Job ID = 14521036 SRX = SRX8245460 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 15350027 spots for SRR11684671/SRR11684671.sra Written 15350027 spots for SRR11684671/SRR11684671.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: 00:12:19 15350027 reads; of these: 15350027 (100.00%) were paired; of these: 6922887 (45.10%) aligned concordantly 0 times 7706443 (50.20%) aligned concordantly exactly 1 time 720697 (4.70%) aligned concordantly >1 times ---- 6922887 pairs aligned concordantly 0 times; of these: 38890 (0.56%) aligned discordantly 1 time ---- 6883997 pairs aligned 0 times concordantly or discordantly; of these: 13767994 mates make up the pairs; of these: 8090597 (58.76%) aligned 0 times 5023165 (36.48%) aligned exactly 1 time 654232 (4.75%) aligned >1 times 73.65% overall alignment rate Time searching: 00:12:19 Overall time: 00:12:19 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] 881636 / 8464229 = 0.1042 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 20:42:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245460/SRX8245460.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245460/SRX8245460.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245460/SRX8245460.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245460/SRX8245460.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 20:42:27: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:42:27: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:42:33: 1000000 INFO @ Sat, 15 Jan 2022 20:42:39: 2000000 INFO @ Sat, 15 Jan 2022 20:42:44: 3000000 INFO @ Sat, 15 Jan 2022 20:42:50: 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 20:42:56: 5000000 INFO @ Sat, 15 Jan 2022 20:42:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245460/SRX8245460.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245460/SRX8245460.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245460/SRX8245460.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245460/SRX8245460.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 20:42:57: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:42:57: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:43:01: 6000000 INFO @ Sat, 15 Jan 2022 20:43:05: 1000000 INFO @ Sat, 15 Jan 2022 20:43:07: 7000000 INFO @ Sat, 15 Jan 2022 20:43:13: 2000000 INFO @ Sat, 15 Jan 2022 20:43:13: 8000000 INFO @ Sat, 15 Jan 2022 20:43:19: 9000000 INFO @ Sat, 15 Jan 2022 20:43:21: 3000000 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 20:43:25: 10000000 INFO @ Sat, 15 Jan 2022 20:43:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245460/SRX8245460.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245460/SRX8245460.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245460/SRX8245460.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245460/SRX8245460.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 20:43:27: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:43:27: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:43:29: 4000000 INFO @ Sat, 15 Jan 2022 20:43:31: 11000000 INFO @ Sat, 15 Jan 2022 20:43:33: 1000000 INFO @ Sat, 15 Jan 2022 20:43:37: 12000000 INFO @ Sat, 15 Jan 2022 20:43:37: 5000000 INFO @ Sat, 15 Jan 2022 20:43:40: 2000000 INFO @ Sat, 15 Jan 2022 20:43:44: 13000000 INFO @ Sat, 15 Jan 2022 20:43:45: 6000000 INFO @ Sat, 15 Jan 2022 20:43:47: 3000000 INFO @ Sat, 15 Jan 2022 20:43:50: 14000000 INFO @ Sat, 15 Jan 2022 20:43:53: 4000000 INFO @ Sat, 15 Jan 2022 20:43:53: 7000000 INFO @ Sat, 15 Jan 2022 20:43:58: 15000000 INFO @ Sat, 15 Jan 2022 20:43:59: 5000000 INFO @ Sat, 15 Jan 2022 20:44:01: 8000000 INFO @ Sat, 15 Jan 2022 20:44:04: 16000000 INFO @ Sat, 15 Jan 2022 20:44:05: 6000000 INFO @ Sat, 15 Jan 2022 20:44:09: 9000000 INFO @ Sat, 15 Jan 2022 20:44:11: 17000000 INFO @ Sat, 15 Jan 2022 20:44:12: 7000000 INFO @ Sat, 15 Jan 2022 20:44:16: 10000000 INFO @ Sat, 15 Jan 2022 20:44:18: 18000000 INFO @ Sat, 15 Jan 2022 20:44:18: 8000000 INFO @ Sat, 15 Jan 2022 20:44:24: 9000000 INFO @ Sat, 15 Jan 2022 20:44:24: 11000000 INFO @ Sat, 15 Jan 2022 20:44:24: 19000000 INFO @ Sat, 15 Jan 2022 20:44:30: 10000000 INFO @ Sat, 15 Jan 2022 20:44:31: 20000000 INFO @ Sat, 15 Jan 2022 20:44:32: 12000000 INFO @ Sat, 15 Jan 2022 20:44:36: 11000000 INFO @ Sat, 15 Jan 2022 20:44:37: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:44:37: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:44:37: #1 total tags in treatment: 7547551 INFO @ Sat, 15 Jan 2022 20:44:37: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:44:37: #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 20:44:37: #1 tags after filtering in treatment: 3747981 INFO @ Sat, 15 Jan 2022 20:44:37: #1 Redundant rate of treatment: 0.50 INFO @ Sat, 15 Jan 2022 20:44:37: #1 finished! INFO @ Sat, 15 Jan 2022 20:44:37: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:44:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:44:37: #2 number of paired peaks: 167 WARNING @ Sat, 15 Jan 2022 20:44:37: Fewer paired peaks (167) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 167 pairs to build model! INFO @ Sat, 15 Jan 2022 20:44:37: start model_add_line... INFO @ Sat, 15 Jan 2022 20:44:37: start X-correlation... INFO @ Sat, 15 Jan 2022 20:44:37: end of X-cor INFO @ Sat, 15 Jan 2022 20:44:37: #2 finished! INFO @ Sat, 15 Jan 2022 20:44:37: #2 predicted fragment length is 0 bps INFO @ Sat, 15 Jan 2022 20:44:37: #2 alternative fragment length(s) may be 0,50,102,127,148,193,243,301,352,386,401,422,428,456,490,493,531,552 bps INFO @ Sat, 15 Jan 2022 20:44:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/sacCer3/SRX8245460/SRX8245460.05_model.r WARNING @ Sat, 15 Jan 2022 20:44:37: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 15 Jan 2022 20:44:37: #2 You may need to consider one of the other alternative d(s): 0,50,102,127,148,193,243,301,352,386,401,422,428,456,490,493,531,552 WARNING @ Sat, 15 Jan 2022 20:44:37: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 15 Jan 2022 20:44:37: #3 Call peaks... INFO @ Sat, 15 Jan 2022 20:44:37: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 20:44:40: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:44:42: 12000000 INFO @ Sat, 15 Jan 2022 20:44:48: 13000000 INFO @ Sat, 15 Jan 2022 20:44:48: 14000000 INFO @ Sat, 15 Jan 2022 20:44:54: 14000000 BigWig に変換しました。 /var/spool/uge/it008/job_scripts/14521036: line 297: 6308 Terminated MACS $i /var/spool/uge/it008/job_scripts/14521036: line 297: 7742 Terminated MACS $i /var/spool/uge/it008/job_scripts/14521036: line 297: 7843 Terminated MACS $i ls: cannot access SRX8245460.05.bed: No such file or directory mv: cannot stat ‘SRX8245460.05.bed’: No such file or directory mv: cannot stat ‘SRX8245460.05.bb’: No such file or directory ls: cannot access SRX8245460.10.bed: No such file or directory mv: cannot stat ‘SRX8245460.10.bed’: No such file or directory mv: cannot stat ‘SRX8245460.10.bb’: No such file or directory ls: cannot access SRX8245460.20.bed: No such file or directory mv: cannot stat ‘SRX8245460.20.bed’: No such file or directory mv: cannot stat ‘SRX8245460.20.bb’: No such file or directory