Job ID = 7100940 SRX = SRX6911516 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 16137016 spots for SRR10191159/SRR10191159.sra Written 16137016 spots for SRR10191159/SRR10191159.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: 00:16:58 16137016 reads; of these: 16137016 (100.00%) were paired; of these: 5952896 (36.89%) aligned concordantly 0 times 7581004 (46.98%) aligned concordantly exactly 1 time 2603116 (16.13%) aligned concordantly >1 times ---- 5952896 pairs aligned concordantly 0 times; of these: 1454044 (24.43%) aligned discordantly 1 time ---- 4498852 pairs aligned 0 times concordantly or discordantly; of these: 8997704 mates make up the pairs; of these: 7833669 (87.06%) aligned 0 times 347515 (3.86%) aligned exactly 1 time 816520 (9.07%) aligned >1 times 75.73% overall alignment rate Time searching: 00:16:58 Overall time: 00:16:58 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] 1778510 / 11635949 = 0.1528 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 12:38:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.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 12:38:41: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:38:41: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:38:47: 1000000 INFO @ Wed, 22 Jul 2020 12:38:53: 2000000 INFO @ Wed, 22 Jul 2020 12:38:59: 3000000 INFO @ Wed, 22 Jul 2020 12:39:06: 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 12:39:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.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 12:39:11: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:39:11: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:39:12: 5000000 INFO @ Wed, 22 Jul 2020 12:39:16: 1000000 INFO @ Wed, 22 Jul 2020 12:39:19: 6000000 INFO @ Wed, 22 Jul 2020 12:39:22: 2000000 INFO @ Wed, 22 Jul 2020 12:39:26: 7000000 INFO @ Wed, 22 Jul 2020 12:39:28: 3000000 INFO @ Wed, 22 Jul 2020 12:39:32: 8000000 INFO @ Wed, 22 Jul 2020 12:39:34: 4000000 INFO @ Wed, 22 Jul 2020 12:39:39: 9000000 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 12:39:40: 5000000 INFO @ Wed, 22 Jul 2020 12:39:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.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 12:39:41: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:39:41: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:39:45: 6000000 INFO @ Wed, 22 Jul 2020 12:39:46: 10000000 INFO @ Wed, 22 Jul 2020 12:39:47: 1000000 INFO @ Wed, 22 Jul 2020 12:39:51: 7000000 INFO @ Wed, 22 Jul 2020 12:39:52: 11000000 INFO @ Wed, 22 Jul 2020 12:39:53: 2000000 INFO @ Wed, 22 Jul 2020 12:39:57: 8000000 INFO @ Wed, 22 Jul 2020 12:39:59: 3000000 INFO @ Wed, 22 Jul 2020 12:39:59: 12000000 INFO @ Wed, 22 Jul 2020 12:40:03: 9000000 INFO @ Wed, 22 Jul 2020 12:40:05: 4000000 INFO @ Wed, 22 Jul 2020 12:40:06: 13000000 INFO @ Wed, 22 Jul 2020 12:40:09: 10000000 INFO @ Wed, 22 Jul 2020 12:40:10: 5000000 INFO @ Wed, 22 Jul 2020 12:40:12: 14000000 INFO @ Wed, 22 Jul 2020 12:40:15: 11000000 INFO @ Wed, 22 Jul 2020 12:40:16: 6000000 INFO @ Wed, 22 Jul 2020 12:40:19: 15000000 INFO @ Wed, 22 Jul 2020 12:40:21: 12000000 INFO @ Wed, 22 Jul 2020 12:40:22: 7000000 INFO @ Wed, 22 Jul 2020 12:40:25: 16000000 INFO @ Wed, 22 Jul 2020 12:40:27: 13000000 INFO @ Wed, 22 Jul 2020 12:40:28: 8000000 INFO @ Wed, 22 Jul 2020 12:40:32: 17000000 INFO @ Wed, 22 Jul 2020 12:40:33: 14000000 INFO @ Wed, 22 Jul 2020 12:40:34: 9000000 INFO @ Wed, 22 Jul 2020 12:40:38: 15000000 INFO @ Wed, 22 Jul 2020 12:40:39: 18000000 INFO @ Wed, 22 Jul 2020 12:40:40: 10000000 INFO @ Wed, 22 Jul 2020 12:40:44: 16000000 INFO @ Wed, 22 Jul 2020 12:40:46: 19000000 INFO @ Wed, 22 Jul 2020 12:40:46: 11000000 INFO @ Wed, 22 Jul 2020 12:40:50: 17000000 INFO @ Wed, 22 Jul 2020 12:40:52: 12000000 INFO @ Wed, 22 Jul 2020 12:40:52: 20000000 INFO @ Wed, 22 Jul 2020 12:40:56: 18000000 INFO @ Wed, 22 Jul 2020 12:40:58: 13000000 INFO @ Wed, 22 Jul 2020 12:40:58: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:40:58: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:40:58: #1 total tags in treatment: 8513733 INFO @ Wed, 22 Jul 2020 12:40:58: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:40:58: #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 12:40:58: #1 tags after filtering in treatment: 5601447 INFO @ Wed, 22 Jul 2020 12:40:58: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 12:40:58: #1 finished! INFO @ Wed, 22 Jul 2020 12:40:58: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:40:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:40:59: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 12:40:59: Too few paired peaks (0) 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 12:40:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.05_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/SRX6911516/SRX6911516.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 12:41:02: 19000000 INFO @ Wed, 22 Jul 2020 12:41:03: 14000000 INFO @ Wed, 22 Jul 2020 12:41:08: 20000000 INFO @ Wed, 22 Jul 2020 12:41:09: 15000000 INFO @ Wed, 22 Jul 2020 12:41:13: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:41:13: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:41:13: #1 total tags in treatment: 8513733 INFO @ Wed, 22 Jul 2020 12:41:13: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:41:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 12:41:13: #1 tags after filtering in treatment: 5601447 INFO @ Wed, 22 Jul 2020 12:41:13: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 12:41:13: #1 finished! INFO @ Wed, 22 Jul 2020 12:41:13: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:41:13: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:41:13: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 12:41:13: Too few paired peaks (0) 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 12:41:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.10_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/SRX6911516/SRX6911516.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 12:41:15: 16000000 INFO @ Wed, 22 Jul 2020 12:41:21: 17000000 INFO @ Wed, 22 Jul 2020 12:41:26: 18000000 INFO @ Wed, 22 Jul 2020 12:41:32: 19000000 INFO @ Wed, 22 Jul 2020 12:41:38: 20000000 INFO @ Wed, 22 Jul 2020 12:41:43: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:41:43: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:41:43: #1 total tags in treatment: 8513733 INFO @ Wed, 22 Jul 2020 12:41:43: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:41:43: #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 12:41:43: #1 tags after filtering in treatment: 5601447 INFO @ Wed, 22 Jul 2020 12:41:43: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 12:41:43: #1 finished! INFO @ Wed, 22 Jul 2020 12:41:43: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:41:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:41:43: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 12:41:43: Too few paired peaks (0) 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 12:41:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.20_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/SRX6911516/SRX6911516.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911516/SRX6911516.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling