Job ID = 7113279 SRX = SRX8357705 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:32:30 prefetch.2.10.7: 1) Downloading 'SRR11806243'... 2020-07-22T05:32:30 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:42:21 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:42:21 prefetch.2.10.7: 1) 'SRR11806243' was downloaded successfully 2020-07-22T05:42:21 prefetch.2.10.7: 'SRR11806243' has 0 unresolved dependencies Read 29132772 spots for SRR11806243/SRR11806243.sra Written 29132772 spots for SRR11806243/SRR11806243.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: 00:54:22 29132772 reads; of these: 29132772 (100.00%) were paired; of these: 5734085 (19.68%) aligned concordantly 0 times 11529651 (39.58%) aligned concordantly exactly 1 time 11869036 (40.74%) aligned concordantly >1 times ---- 5734085 pairs aligned concordantly 0 times; of these: 974198 (16.99%) aligned discordantly 1 time ---- 4759887 pairs aligned 0 times concordantly or discordantly; of these: 9519774 mates make up the pairs; of these: 6940728 (72.91%) aligned 0 times 488238 (5.13%) aligned exactly 1 time 2090808 (21.96%) aligned >1 times 88.09% overall alignment rate Time searching: 00:54:22 Overall time: 00:54:22 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 40 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] 12964082 / 24234872 = 0.5349 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 15:55:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.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 15:55:47: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:55:47: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:55:54: 1000000 INFO @ Wed, 22 Jul 2020 15:56:01: 2000000 INFO @ Wed, 22 Jul 2020 15:56:09: 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 15:56:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.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 15:56:16: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:56:16: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:56:16: 4000000 INFO @ Wed, 22 Jul 2020 15:56:24: 1000000 INFO @ Wed, 22 Jul 2020 15:56:24: 5000000 INFO @ Wed, 22 Jul 2020 15:56:33: 6000000 INFO @ Wed, 22 Jul 2020 15:56:33: 2000000 INFO @ Wed, 22 Jul 2020 15:56:41: 7000000 INFO @ Wed, 22 Jul 2020 15:56:41: 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 15:56:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.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 15:56:46: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:56:46: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:56:49: 8000000 INFO @ Wed, 22 Jul 2020 15:56:50: 4000000 INFO @ Wed, 22 Jul 2020 15:56:54: 1000000 INFO @ Wed, 22 Jul 2020 15:56:57: 9000000 INFO @ Wed, 22 Jul 2020 15:56:58: 5000000 INFO @ Wed, 22 Jul 2020 15:57:03: 2000000 INFO @ Wed, 22 Jul 2020 15:57:06: 10000000 INFO @ Wed, 22 Jul 2020 15:57:06: 6000000 INFO @ Wed, 22 Jul 2020 15:57:12: 3000000 INFO @ Wed, 22 Jul 2020 15:57:14: 11000000 INFO @ Wed, 22 Jul 2020 15:57:15: 7000000 INFO @ Wed, 22 Jul 2020 15:57:20: 4000000 INFO @ Wed, 22 Jul 2020 15:57:23: 12000000 INFO @ Wed, 22 Jul 2020 15:57:23: 8000000 INFO @ Wed, 22 Jul 2020 15:57:29: 5000000 INFO @ Wed, 22 Jul 2020 15:57:31: 13000000 INFO @ Wed, 22 Jul 2020 15:57:32: 9000000 INFO @ Wed, 22 Jul 2020 15:57:37: 6000000 INFO @ Wed, 22 Jul 2020 15:57:39: 14000000 INFO @ Wed, 22 Jul 2020 15:57:40: 10000000 INFO @ Wed, 22 Jul 2020 15:57:45: 7000000 INFO @ Wed, 22 Jul 2020 15:57:48: 15000000 INFO @ Wed, 22 Jul 2020 15:57:48: 11000000 INFO @ Wed, 22 Jul 2020 15:57:54: 8000000 INFO @ Wed, 22 Jul 2020 15:57:56: 16000000 INFO @ Wed, 22 Jul 2020 15:57:57: 12000000 INFO @ Wed, 22 Jul 2020 15:58:03: 9000000 INFO @ Wed, 22 Jul 2020 15:58:04: 17000000 INFO @ Wed, 22 Jul 2020 15:58:06: 13000000 INFO @ Wed, 22 Jul 2020 15:58:11: 10000000 INFO @ Wed, 22 Jul 2020 15:58:13: 18000000 INFO @ Wed, 22 Jul 2020 15:58:14: 14000000 INFO @ Wed, 22 Jul 2020 15:58:19: 11000000 INFO @ Wed, 22 Jul 2020 15:58:21: 19000000 INFO @ Wed, 22 Jul 2020 15:58:23: 15000000 INFO @ Wed, 22 Jul 2020 15:58:28: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:58:29: 20000000 INFO @ Wed, 22 Jul 2020 15:58:31: 16000000 INFO @ Wed, 22 Jul 2020 15:58:36: 13000000 INFO @ Wed, 22 Jul 2020 15:58:38: 21000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:58:39: 17000000 INFO @ Wed, 22 Jul 2020 15:58:45: 14000000 INFO @ Wed, 22 Jul 2020 15:58:46: 22000000 INFO @ Wed, 22 Jul 2020 15:58:47: 18000000 INFO @ Wed, 22 Jul 2020 15:58:53: 15000000 INFO @ Wed, 22 Jul 2020 15:58:54: 23000000 INFO @ Wed, 22 Jul 2020 15:58:56: 19000000 INFO @ Wed, 22 Jul 2020 15:59:01: 16000000 INFO @ Wed, 22 Jul 2020 15:59:03: 24000000 INFO @ Wed, 22 Jul 2020 15:59:04: 20000000 INFO @ Wed, 22 Jul 2020 15:59:10: 17000000 INFO @ Wed, 22 Jul 2020 15:59:11: 25000000 INFO @ Wed, 22 Jul 2020 15:59:12: 21000000 INFO @ Wed, 22 Jul 2020 15:59:14: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 15:59:14: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 15:59:14: #1 total tags in treatment: 10658272 INFO @ Wed, 22 Jul 2020 15:59:14: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:59:14: #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 15:59:14: #1 tags after filtering in treatment: 4255865 INFO @ Wed, 22 Jul 2020 15:59:14: #1 Redundant rate of treatment: 0.60 INFO @ Wed, 22 Jul 2020 15:59:14: #1 finished! INFO @ Wed, 22 Jul 2020 15:59:14: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:59:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:59:15: #2 number of paired peaks: 35 WARNING @ Wed, 22 Jul 2020 15:59:15: Too few paired peaks (35) 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 15:59:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.05_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/SRX8357705/SRX8357705.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:59:18: 18000000 INFO @ Wed, 22 Jul 2020 15:59:21: 22000000 INFO @ Wed, 22 Jul 2020 15:59:26: 19000000 INFO @ Wed, 22 Jul 2020 15:59:29: 23000000 INFO @ Wed, 22 Jul 2020 15:59:34: 20000000 INFO @ Wed, 22 Jul 2020 15:59:37: 24000000 INFO @ Wed, 22 Jul 2020 15:59:42: 21000000 INFO @ Wed, 22 Jul 2020 15:59:45: 25000000 INFO @ Wed, 22 Jul 2020 15:59:48: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 15:59:48: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 15:59:48: #1 total tags in treatment: 10658272 INFO @ Wed, 22 Jul 2020 15:59:48: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:59:48: #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 15:59:49: #1 tags after filtering in treatment: 4255865 INFO @ Wed, 22 Jul 2020 15:59:49: #1 Redundant rate of treatment: 0.60 INFO @ Wed, 22 Jul 2020 15:59:49: #1 finished! INFO @ Wed, 22 Jul 2020 15:59:49: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:59:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:59:49: #2 number of paired peaks: 35 WARNING @ Wed, 22 Jul 2020 15:59:49: Too few paired peaks (35) 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 15:59:49: Process for pairing-model is terminated! INFO @ Wed, 22 Jul 2020 15:59:51: 22000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:59:58: 23000000 INFO @ Wed, 22 Jul 2020 16:00:05: 24000000 INFO @ Wed, 22 Jul 2020 16:00:12: 25000000 INFO @ Wed, 22 Jul 2020 16:00:15: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 16:00:15: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 16:00:15: #1 total tags in treatment: 10658272 INFO @ Wed, 22 Jul 2020 16:00:15: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:00:15: #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 16:00:15: #1 tags after filtering in treatment: 4255865 INFO @ Wed, 22 Jul 2020 16:00:15: #1 Redundant rate of treatment: 0.60 INFO @ Wed, 22 Jul 2020 16:00:15: #1 finished! INFO @ Wed, 22 Jul 2020 16:00:15: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:00:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:00:15: #2 number of paired peaks: 35 WARNING @ Wed, 22 Jul 2020 16:00:15: Too few paired peaks (35) 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 16:00:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.20_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/SRX8357705/SRX8357705.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357705/SRX8357705.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling