Job ID = 7109327 SRX = SRX8036503 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 14726680 spots for SRR11458950/SRR11458950.sra Written 14726680 spots for SRR11458950/SRR11458950.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: 00:08:57 14726680 reads; of these: 14726680 (100.00%) were paired; of these: 9598297 (65.18%) aligned concordantly 0 times 4311813 (29.28%) aligned concordantly exactly 1 time 816570 (5.54%) aligned concordantly >1 times ---- 9598297 pairs aligned concordantly 0 times; of these: 12096 (0.13%) aligned discordantly 1 time ---- 9586201 pairs aligned 0 times concordantly or discordantly; of these: 19172402 mates make up the pairs; of these: 19138653 (99.82%) aligned 0 times 21076 (0.11%) aligned exactly 1 time 12673 (0.07%) aligned >1 times 35.02% overall alignment rate Time searching: 00:08:57 Overall time: 00:08:57 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] 1037145 / 5139095 = 0.2018 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:58:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.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 @ Wed, 22 Jul 2020 13:58:56: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:58:56: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:59:03: 1000000 INFO @ Wed, 22 Jul 2020 13:59:10: 2000000 INFO @ Wed, 22 Jul 2020 13:59:17: 3000000 INFO @ Wed, 22 Jul 2020 13:59:23: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:59:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.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 @ Wed, 22 Jul 2020 13:59:26: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:59:26: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:59:31: 5000000 INFO @ Wed, 22 Jul 2020 13:59:35: 1000000 INFO @ Wed, 22 Jul 2020 13:59:39: 6000000 INFO @ Wed, 22 Jul 2020 13:59:44: 2000000 INFO @ Wed, 22 Jul 2020 13:59:47: 7000000 INFO @ Wed, 22 Jul 2020 13:59:54: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:59:55: 8000000 INFO @ Wed, 22 Jul 2020 13:59:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.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 @ Wed, 22 Jul 2020 13:59:56: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:59:56: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:59:57: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:59:57: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:59:57: #1 total tags in treatment: 4092502 INFO @ Wed, 22 Jul 2020 13:59:57: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:59:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:59:57: #1 tags after filtering in treatment: 3346107 INFO @ Wed, 22 Jul 2020 13:59:57: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Jul 2020 13:59:57: #1 finished! INFO @ Wed, 22 Jul 2020 13:59:57: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:59:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:59:57: #2 number of paired peaks: 37 WARNING @ Wed, 22 Jul 2020 13:59:57: Too few paired peaks (37) 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 @ Wed, 22 Jul 2020 13:59:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.05_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/SRX8036503/SRX8036503.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:00:03: 4000000 INFO @ Wed, 22 Jul 2020 14:00:05: 1000000 INFO @ Wed, 22 Jul 2020 14:00:12: 5000000 INFO @ Wed, 22 Jul 2020 14:00:14: 2000000 INFO @ Wed, 22 Jul 2020 14:00:22: 6000000 INFO @ Wed, 22 Jul 2020 14:00:22: 3000000 INFO @ Wed, 22 Jul 2020 14:00:31: 7000000 INFO @ Wed, 22 Jul 2020 14:00:31: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:00:40: 8000000 INFO @ Wed, 22 Jul 2020 14:00:40: 5000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:00:42: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:00:42: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:00:42: #1 total tags in treatment: 4092502 INFO @ Wed, 22 Jul 2020 14:00:42: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:00:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:00:42: #1 tags after filtering in treatment: 3346107 INFO @ Wed, 22 Jul 2020 14:00:42: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Jul 2020 14:00:42: #1 finished! INFO @ Wed, 22 Jul 2020 14:00:42: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:00:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:00:43: #2 number of paired peaks: 37 WARNING @ Wed, 22 Jul 2020 14:00:43: Too few paired peaks (37) 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 @ Wed, 22 Jul 2020 14:00:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.10_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/SRX8036503/SRX8036503.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:00:49: 6000000 INFO @ Wed, 22 Jul 2020 14:00:57: 7000000 INFO @ Wed, 22 Jul 2020 14:01:06: 8000000 INFO @ Wed, 22 Jul 2020 14:01:07: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:01:07: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:01:07: #1 total tags in treatment: 4092502 INFO @ Wed, 22 Jul 2020 14:01:07: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:01:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:01:07: #1 tags after filtering in treatment: 3346107 INFO @ Wed, 22 Jul 2020 14:01:07: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Jul 2020 14:01:07: #1 finished! INFO @ Wed, 22 Jul 2020 14:01:07: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:01:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:01:08: #2 number of paired peaks: 37 WARNING @ Wed, 22 Jul 2020 14:01:08: Too few paired peaks (37) 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 @ Wed, 22 Jul 2020 14:01:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.20_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/SRX8036503/SRX8036503.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036503/SRX8036503.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling