Job ID = 14520768 SRX = SRX8245519 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8008547 spots for SRR11684730/SRR11684730.sra Written 8008547 spots for SRR11684730/SRR11684730.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: 00:07:24 8008547 reads; of these: 8008547 (100.00%) were paired; of these: 4341574 (54.21%) aligned concordantly 0 times 3166369 (39.54%) aligned concordantly exactly 1 time 500604 (6.25%) aligned concordantly >1 times ---- 4341574 pairs aligned concordantly 0 times; of these: 61486 (1.42%) aligned discordantly 1 time ---- 4280088 pairs aligned 0 times concordantly or discordantly; of these: 8560176 mates make up the pairs; of these: 4740971 (55.38%) aligned 0 times 3250901 (37.98%) aligned exactly 1 time 568304 (6.64%) aligned >1 times 70.40% overall alignment rate Time searching: 00:07:24 Overall time: 00:07:24 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] 66105 / 3727825 = 0.0177 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 20:04:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245519/SRX8245519.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245519/SRX8245519.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245519/SRX8245519.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245519/SRX8245519.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 20:04:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:04:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:04:48: 1000000 INFO @ Sat, 15 Jan 2022 20:04:55: 2000000 INFO @ Sat, 15 Jan 2022 20:05:02: 3000000 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 20:05:08: 4000000 INFO @ Sat, 15 Jan 2022 20:05:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245519/SRX8245519.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245519/SRX8245519.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245519/SRX8245519.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245519/SRX8245519.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 20:05:10: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:05:10: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:05:15: 5000000 INFO @ Sat, 15 Jan 2022 20:05:18: 1000000 INFO @ Sat, 15 Jan 2022 20:05:23: 6000000 INFO @ Sat, 15 Jan 2022 20:05:27: 2000000 INFO @ Sat, 15 Jan 2022 20:05:30: 7000000 INFO @ Sat, 15 Jan 2022 20:05:36: 3000000 BedGraph に変換中... INFO @ Sat, 15 Jan 2022 20:05:37: 8000000 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 20:05:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245519/SRX8245519.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245519/SRX8245519.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245519/SRX8245519.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245519/SRX8245519.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 20:05:39: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:05:39: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:05:44: 9000000 INFO @ Sat, 15 Jan 2022 20:05:44: 4000000 INFO @ Sat, 15 Jan 2022 20:05:47: 1000000 INFO @ Sat, 15 Jan 2022 20:05:52: 10000000 INFO @ Sat, 15 Jan 2022 20:05:53: 5000000 INFO @ Sat, 15 Jan 2022 20:05:55: 2000000 INFO @ Sat, 15 Jan 2022 20:05:59: 11000000 INFO @ Sat, 15 Jan 2022 20:06:00: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:06:00: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:06:00: #1 total tags in treatment: 3601139 INFO @ Sat, 15 Jan 2022 20:06:00: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:06:00: #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 20:06:00: #1 tags after filtering in treatment: 2474298 INFO @ Sat, 15 Jan 2022 20:06:00: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 20:06:00: #1 finished! INFO @ Sat, 15 Jan 2022 20:06:00: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:06:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:06:00: #2 number of paired peaks: 172 WARNING @ Sat, 15 Jan 2022 20:06:00: Fewer paired peaks (172) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 172 pairs to build model! INFO @ Sat, 15 Jan 2022 20:06:00: start model_add_line... INFO @ Sat, 15 Jan 2022 20:06:00: start X-correlation... INFO @ Sat, 15 Jan 2022 20:06:00: end of X-cor INFO @ Sat, 15 Jan 2022 20:06:00: #2 finished! INFO @ Sat, 15 Jan 2022 20:06:00: #2 predicted fragment length is 0 bps INFO @ Sat, 15 Jan 2022 20:06:00: #2 alternative fragment length(s) may be 0,18,65,78,91,123,131,151,188,214,245,268,320,384,422,486,552,582 bps INFO @ Sat, 15 Jan 2022 20:06:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/sacCer3/SRX8245519/SRX8245519.05_model.r WARNING @ Sat, 15 Jan 2022 20:06:00: #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 20:06:00: #2 You may need to consider one of the other alternative d(s): 0,18,65,78,91,123,131,151,188,214,245,268,320,384,422,486,552,582 WARNING @ Sat, 15 Jan 2022 20:06:00: #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 20:06:00: #3 Call peaks... INFO @ Sat, 15 Jan 2022 20:06:00: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 20:06:02: 3000000 INFO @ Sat, 15 Jan 2022 20:06:03: 6000000 INFO @ Sat, 15 Jan 2022 20:06:09: 4000000 INFO @ Sat, 15 Jan 2022 20:06:13: 7000000 INFO @ Sat, 15 Jan 2022 20:06:17: 5000000 INFO @ Sat, 15 Jan 2022 20:06:21: 8000000 INFO @ Sat, 15 Jan 2022 20:06:25: 6000000 INFO @ Sat, 15 Jan 2022 20:06:30: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:06:33: 7000000 INFO @ Sat, 15 Jan 2022 20:06:39: 10000000 INFO @ Sat, 15 Jan 2022 20:06:41: 8000000 BigWig に変換しました。 /var/spool/uge/at077/job_scripts/14520768: line 297: 51017 Terminated MACS $i /var/spool/uge/at077/job_scripts/14520768: line 297: 51212 Terminated MACS $i /var/spool/uge/at077/job_scripts/14520768: line 297: 51417 Terminated MACS $i ls: cannot access SRX8245519.05.bed: No such file or directory mv: cannot stat ‘SRX8245519.05.bed’: No such file or directory mv: cannot stat ‘SRX8245519.05.bb’: No such file or directory ls: cannot access SRX8245519.10.bed: No such file or directory mv: cannot stat ‘SRX8245519.10.bed’: No such file or directory mv: cannot stat ‘SRX8245519.10.bb’: No such file or directory ls: cannot access SRX8245519.20.bed: No such file or directory mv: cannot stat ‘SRX8245519.20.bed’: No such file or directory mv: cannot stat ‘SRX8245519.20.bb’: No such file or directory