Job ID = 7113264 SRX = SRX8357701 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:27:33 prefetch.2.10.7: 1) Downloading 'SRR11806289'... 2020-07-22T05:27:33 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:28:19 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:28:20 prefetch.2.10.7: 'SRR11806289' is valid 2020-07-22T05:28:20 prefetch.2.10.7: 1) 'SRR11806289' was downloaded successfully 2020-07-22T05:28:20 prefetch.2.10.7: 'SRR11806289' has 0 unresolved dependencies Read 13687438 spots for SRR11806289/SRR11806289.sra Written 13687438 spots for SRR11806289/SRR11806289.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: 00:07:04 13687438 reads; of these: 13687438 (100.00%) were paired; of these: 803553 (5.87%) aligned concordantly 0 times 11673953 (85.29%) aligned concordantly exactly 1 time 1209932 (8.84%) aligned concordantly >1 times ---- 803553 pairs aligned concordantly 0 times; of these: 46476 (5.78%) aligned discordantly 1 time ---- 757077 pairs aligned 0 times concordantly or discordantly; of these: 1514154 mates make up the pairs; of these: 1265898 (83.60%) aligned 0 times 197891 (13.07%) aligned exactly 1 time 50365 (3.33%) aligned >1 times 95.38% overall alignment rate Time searching: 00:07:04 Overall time: 00:07:04 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] 2128501 / 12909550 = 0.1649 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 14:42:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.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 14:42:55: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:42:55: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:43:01: 1000000 INFO @ Wed, 22 Jul 2020 14:43:07: 2000000 INFO @ Wed, 22 Jul 2020 14:43:13: 3000000 INFO @ Wed, 22 Jul 2020 14:43:19: 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 14:43:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.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 14:43:25: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:43:25: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:43:25: 5000000 INFO @ Wed, 22 Jul 2020 14:43:31: 1000000 INFO @ Wed, 22 Jul 2020 14:43:32: 6000000 INFO @ Wed, 22 Jul 2020 14:43:38: 2000000 INFO @ Wed, 22 Jul 2020 14:43:38: 7000000 INFO @ Wed, 22 Jul 2020 14:43:45: 3000000 INFO @ Wed, 22 Jul 2020 14:43:45: 8000000 INFO @ Wed, 22 Jul 2020 14:43:51: 4000000 INFO @ Wed, 22 Jul 2020 14:43:52: 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 14:43:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.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 14:43:55: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:43:55: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:43:58: 10000000 INFO @ Wed, 22 Jul 2020 14:43:58: 5000000 INFO @ Wed, 22 Jul 2020 14:44:02: 1000000 INFO @ Wed, 22 Jul 2020 14:44:05: 11000000 INFO @ Wed, 22 Jul 2020 14:44:05: 6000000 INFO @ Wed, 22 Jul 2020 14:44:09: 2000000 INFO @ Wed, 22 Jul 2020 14:44:12: 12000000 INFO @ Wed, 22 Jul 2020 14:44:13: 7000000 INFO @ Wed, 22 Jul 2020 14:44:16: 3000000 INFO @ Wed, 22 Jul 2020 14:44:19: 13000000 INFO @ Wed, 22 Jul 2020 14:44:19: 8000000 INFO @ Wed, 22 Jul 2020 14:44:22: 4000000 INFO @ Wed, 22 Jul 2020 14:44:26: 14000000 INFO @ Wed, 22 Jul 2020 14:44:26: 9000000 INFO @ Wed, 22 Jul 2020 14:44:29: 5000000 INFO @ Wed, 22 Jul 2020 14:44:32: 15000000 INFO @ Wed, 22 Jul 2020 14:44:33: 10000000 INFO @ Wed, 22 Jul 2020 14:44:36: 6000000 INFO @ Wed, 22 Jul 2020 14:44:39: 16000000 INFO @ Wed, 22 Jul 2020 14:44:39: 11000000 INFO @ Wed, 22 Jul 2020 14:44:43: 7000000 INFO @ Wed, 22 Jul 2020 14:44:46: 17000000 INFO @ Wed, 22 Jul 2020 14:44:46: 12000000 INFO @ Wed, 22 Jul 2020 14:44:50: 8000000 INFO @ Wed, 22 Jul 2020 14:44:52: 18000000 INFO @ Wed, 22 Jul 2020 14:44:52: 13000000 INFO @ Wed, 22 Jul 2020 14:44:56: 9000000 INFO @ Wed, 22 Jul 2020 14:44:59: 19000000 INFO @ Wed, 22 Jul 2020 14:44:59: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:45:03: 10000000 INFO @ Wed, 22 Jul 2020 14:45:05: 20000000 INFO @ Wed, 22 Jul 2020 14:45:06: 15000000 INFO @ Wed, 22 Jul 2020 14:45:10: 11000000 INFO @ Wed, 22 Jul 2020 14:45:12: 21000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:45:13: 16000000 INFO @ Wed, 22 Jul 2020 14:45:17: 12000000 INFO @ Wed, 22 Jul 2020 14:45:17: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:45:17: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:45:17: #1 total tags in treatment: 10758249 INFO @ Wed, 22 Jul 2020 14:45:17: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:45:17: #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 14:45:18: #1 tags after filtering in treatment: 5412940 INFO @ Wed, 22 Jul 2020 14:45:18: #1 Redundant rate of treatment: 0.50 INFO @ Wed, 22 Jul 2020 14:45:18: #1 finished! INFO @ Wed, 22 Jul 2020 14:45:18: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:45:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:45:18: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:45:18: 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 14:45:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.05_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/SRX8357701/SRX8357701.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:45:19: 17000000 INFO @ Wed, 22 Jul 2020 14:45:24: 13000000 INFO @ Wed, 22 Jul 2020 14:45:26: 18000000 INFO @ Wed, 22 Jul 2020 14:45:30: 14000000 INFO @ Wed, 22 Jul 2020 14:45:32: 19000000 INFO @ Wed, 22 Jul 2020 14:45:37: 15000000 INFO @ Wed, 22 Jul 2020 14:45:39: 20000000 INFO @ Wed, 22 Jul 2020 14:45:44: 16000000 INFO @ Wed, 22 Jul 2020 14:45:45: 21000000 INFO @ Wed, 22 Jul 2020 14:45:50: 17000000 INFO @ Wed, 22 Jul 2020 14:45:51: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:45:51: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:45:51: #1 total tags in treatment: 10758249 INFO @ Wed, 22 Jul 2020 14:45:51: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:45:51: #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 14:45:51: #1 tags after filtering in treatment: 5412940 INFO @ Wed, 22 Jul 2020 14:45:51: #1 Redundant rate of treatment: 0.50 INFO @ Wed, 22 Jul 2020 14:45:51: #1 finished! INFO @ Wed, 22 Jul 2020 14:45:51: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:45:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:45:51: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:45:51: 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 14:45:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.10_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/SRX8357701/SRX8357701.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:45:56: 18000000 INFO @ Wed, 22 Jul 2020 14:46:03: 19000000 INFO @ Wed, 22 Jul 2020 14:46:09: 20000000 INFO @ Wed, 22 Jul 2020 14:46:15: 21000000 INFO @ Wed, 22 Jul 2020 14:46:21: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:46:21: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:46:21: #1 total tags in treatment: 10758249 INFO @ Wed, 22 Jul 2020 14:46:21: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:46:21: #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 14:46:21: #1 tags after filtering in treatment: 5412940 INFO @ Wed, 22 Jul 2020 14:46:21: #1 Redundant rate of treatment: 0.50 INFO @ Wed, 22 Jul 2020 14:46:21: #1 finished! INFO @ Wed, 22 Jul 2020 14:46:21: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:46:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:46:21: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:46:21: 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 14:46:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.20_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/SRX8357701/SRX8357701.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357701/SRX8357701.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling