Job ID = 7099288 SRX = SRX6911501 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4959993 spots for SRR10191128/SRR10191128.sra Written 4959993 spots for SRR10191128/SRR10191128.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: 00:06:31 4959993 reads; of these: 4959993 (100.00%) were paired; of these: 2504169 (50.49%) aligned concordantly 0 times 1627152 (32.81%) aligned concordantly exactly 1 time 828672 (16.71%) aligned concordantly >1 times ---- 2504169 pairs aligned concordantly 0 times; of these: 1287484 (51.41%) aligned discordantly 1 time ---- 1216685 pairs aligned 0 times concordantly or discordantly; of these: 2433370 mates make up the pairs; of these: 1078314 (44.31%) aligned 0 times 357363 (14.69%) aligned exactly 1 time 997693 (41.00%) aligned >1 times 89.13% overall alignment rate Time searching: 00:06:31 Overall time: 00:06:31 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_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] 533383 / 3742272 = 0.1425 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 12:12:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.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 12:12:53: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:12:53: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:13:01: 1000000 INFO @ Wed, 22 Jul 2020 12:13:09: 2000000 INFO @ Wed, 22 Jul 2020 12:13:16: 3000000 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 12:13:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.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 12:13:23: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:13:23: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:13:24: 4000000 INFO @ Wed, 22 Jul 2020 12:13:31: 1000000 INFO @ Wed, 22 Jul 2020 12:13:33: 5000000 INFO @ Wed, 22 Jul 2020 12:13:40: 2000000 INFO @ Wed, 22 Jul 2020 12:13:41: 6000000 INFO @ Wed, 22 Jul 2020 12:13:48: 3000000 INFO @ Wed, 22 Jul 2020 12:13:50: 7000000 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 12:13:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.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 12:13:53: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:13:53: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:13:57: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:13:57: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:13:57: #1 total tags in treatment: 2100944 INFO @ Wed, 22 Jul 2020 12:13:57: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:13:57: #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 12:13:57: #1 tags after filtering in treatment: 1437248 INFO @ Wed, 22 Jul 2020 12:13:57: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 22 Jul 2020 12:13:57: #1 finished! INFO @ Wed, 22 Jul 2020 12:13:57: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:13:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:13:57: 4000000 INFO @ Wed, 22 Jul 2020 12:13:57: #2 number of paired peaks: 51 WARNING @ Wed, 22 Jul 2020 12:13:57: Too few paired peaks (51) 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 12:13:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.05_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/SRX6911501/SRX6911501.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 12:14:01: 1000000 INFO @ Wed, 22 Jul 2020 12:14:06: 5000000 INFO @ Wed, 22 Jul 2020 12:14:09: 2000000 INFO @ Wed, 22 Jul 2020 12:14:14: 6000000 INFO @ Wed, 22 Jul 2020 12:14:17: 3000000 INFO @ Wed, 22 Jul 2020 12:14:23: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 12:14:24: 4000000 INFO @ Wed, 22 Jul 2020 12:14:30: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:14:30: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:14:30: #1 total tags in treatment: 2100944 INFO @ Wed, 22 Jul 2020 12:14:30: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:14:30: #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 12:14:30: #1 tags after filtering in treatment: 1437248 INFO @ Wed, 22 Jul 2020 12:14:30: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 22 Jul 2020 12:14:30: #1 finished! INFO @ Wed, 22 Jul 2020 12:14:30: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:14:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:14:30: #2 number of paired peaks: 51 WARNING @ Wed, 22 Jul 2020 12:14:30: Too few paired peaks (51) 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 12:14:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.10_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/SRX6911501/SRX6911501.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 12:14:32: 5000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 12:14:39: 6000000 INFO @ Wed, 22 Jul 2020 12:14:46: 7000000 INFO @ Wed, 22 Jul 2020 12:14:52: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:14:52: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:14:52: #1 total tags in treatment: 2100944 INFO @ Wed, 22 Jul 2020 12:14:52: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:14:52: #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 12:14:52: #1 tags after filtering in treatment: 1437248 INFO @ Wed, 22 Jul 2020 12:14:52: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 22 Jul 2020 12:14:52: #1 finished! INFO @ Wed, 22 Jul 2020 12:14:52: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:14:52: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:14:52: #2 number of paired peaks: 51 WARNING @ Wed, 22 Jul 2020 12:14:52: Too few paired peaks (51) 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 12:14:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.20_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/SRX6911501/SRX6911501.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911501/SRX6911501.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling