Job ID = 7116781 SRX = SRX8639486 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:17:29 prefetch.2.10.7: 1) Downloading 'SRR12117050'... 2020-07-22T06:17:29 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:19:43 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:19:43 prefetch.2.10.7: 1) 'SRR12117050' was downloaded successfully 2020-07-22T06:19:43 prefetch.2.10.7: 'SRR12117050' has 0 unresolved dependencies Read 24928950 spots for SRR12117050/SRR12117050.sra Written 24928950 spots for SRR12117050/SRR12117050.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: 00:08:23 24928950 reads; of these: 24928950 (100.00%) were paired; of these: 13766188 (55.22%) aligned concordantly 0 times 10227340 (41.03%) aligned concordantly exactly 1 time 935422 (3.75%) aligned concordantly >1 times ---- 13766188 pairs aligned concordantly 0 times; of these: 84052 (0.61%) aligned discordantly 1 time ---- 13682136 pairs aligned 0 times concordantly or discordantly; of these: 27364272 mates make up the pairs; of these: 27212679 (99.45%) aligned 0 times 121025 (0.44%) aligned exactly 1 time 30568 (0.11%) aligned >1 times 45.42% overall alignment rate Time searching: 00:08:23 Overall time: 00:08:23 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] 133113 / 11238251 = 0.0118 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 15:35:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.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 15:35:00: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:35:00: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:35:05: 1000000 INFO @ Wed, 22 Jul 2020 15:35:10: 2000000 INFO @ Wed, 22 Jul 2020 15:35:15: 3000000 INFO @ Wed, 22 Jul 2020 15:35:20: 4000000 INFO @ Wed, 22 Jul 2020 15:35:25: 5000000 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 15:35:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.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 15:35:30: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:35:30: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:35:30: 6000000 INFO @ Wed, 22 Jul 2020 15:35:36: 7000000 INFO @ Wed, 22 Jul 2020 15:35:36: 1000000 INFO @ Wed, 22 Jul 2020 15:35:42: 8000000 INFO @ Wed, 22 Jul 2020 15:35:42: 2000000 INFO @ Wed, 22 Jul 2020 15:35:48: 9000000 INFO @ Wed, 22 Jul 2020 15:35:48: 3000000 INFO @ Wed, 22 Jul 2020 15:35:53: 10000000 INFO @ Wed, 22 Jul 2020 15:35:54: 4000000 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 15:35:59: 11000000 INFO @ Wed, 22 Jul 2020 15:36:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.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 15:36:00: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:36:00: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:36:00: 5000000 INFO @ Wed, 22 Jul 2020 15:36:05: 12000000 INFO @ Wed, 22 Jul 2020 15:36:06: 1000000 INFO @ Wed, 22 Jul 2020 15:36:06: 6000000 INFO @ Wed, 22 Jul 2020 15:36:11: 13000000 INFO @ Wed, 22 Jul 2020 15:36:12: 2000000 INFO @ Wed, 22 Jul 2020 15:36:12: 7000000 INFO @ Wed, 22 Jul 2020 15:36:17: 14000000 INFO @ Wed, 22 Jul 2020 15:36:18: 3000000 INFO @ Wed, 22 Jul 2020 15:36:19: 8000000 INFO @ Wed, 22 Jul 2020 15:36:23: 15000000 INFO @ Wed, 22 Jul 2020 15:36:24: 4000000 INFO @ Wed, 22 Jul 2020 15:36:25: 9000000 INFO @ Wed, 22 Jul 2020 15:36:29: 16000000 INFO @ Wed, 22 Jul 2020 15:36:30: 5000000 INFO @ Wed, 22 Jul 2020 15:36:31: 10000000 INFO @ Wed, 22 Jul 2020 15:36:35: 17000000 INFO @ Wed, 22 Jul 2020 15:36:35: 6000000 INFO @ Wed, 22 Jul 2020 15:36:37: 11000000 INFO @ Wed, 22 Jul 2020 15:36:40: 18000000 INFO @ Wed, 22 Jul 2020 15:36:41: 7000000 INFO @ Wed, 22 Jul 2020 15:36:43: 12000000 INFO @ Wed, 22 Jul 2020 15:36:46: 19000000 INFO @ Wed, 22 Jul 2020 15:36:47: 8000000 INFO @ Wed, 22 Jul 2020 15:36:49: 13000000 INFO @ Wed, 22 Jul 2020 15:36:52: 20000000 INFO @ Wed, 22 Jul 2020 15:36:52: 9000000 INFO @ Wed, 22 Jul 2020 15:36:55: 14000000 INFO @ Wed, 22 Jul 2020 15:36:57: 21000000 INFO @ Wed, 22 Jul 2020 15:36:58: 10000000 INFO @ Wed, 22 Jul 2020 15:37:01: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:37:03: 22000000 INFO @ Wed, 22 Jul 2020 15:37:04: 11000000 INFO @ Wed, 22 Jul 2020 15:37:05: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:37:05: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:37:05: #1 total tags in treatment: 11029721 INFO @ Wed, 22 Jul 2020 15:37:05: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:37:05: #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 15:37:06: #1 tags after filtering in treatment: 7792652 INFO @ Wed, 22 Jul 2020 15:37:06: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 22 Jul 2020 15:37:06: #1 finished! INFO @ Wed, 22 Jul 2020 15:37:06: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:37:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:37:06: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:37:06: 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 15:37:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.05_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/SRX8639486/SRX8639486.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:37:07: 16000000 INFO @ Wed, 22 Jul 2020 15:37:10: 12000000 INFO @ Wed, 22 Jul 2020 15:37:13: 17000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:37:15: 13000000 INFO @ Wed, 22 Jul 2020 15:37:19: 18000000 INFO @ Wed, 22 Jul 2020 15:37:21: 14000000 INFO @ Wed, 22 Jul 2020 15:37:25: 19000000 INFO @ Wed, 22 Jul 2020 15:37:26: 15000000 INFO @ Wed, 22 Jul 2020 15:37:31: 20000000 INFO @ Wed, 22 Jul 2020 15:37:32: 16000000 INFO @ Wed, 22 Jul 2020 15:37:37: 21000000 INFO @ Wed, 22 Jul 2020 15:37:37: 17000000 INFO @ Wed, 22 Jul 2020 15:37:43: 22000000 INFO @ Wed, 22 Jul 2020 15:37:43: 18000000 INFO @ Wed, 22 Jul 2020 15:37:45: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:37:45: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:37:45: #1 total tags in treatment: 11029721 INFO @ Wed, 22 Jul 2020 15:37:45: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:37:45: #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 15:37:45: #1 tags after filtering in treatment: 7792652 INFO @ Wed, 22 Jul 2020 15:37:45: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 22 Jul 2020 15:37:45: #1 finished! INFO @ Wed, 22 Jul 2020 15:37:45: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:37:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:37:46: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:37:46: 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 15:37:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.10_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/SRX8639486/SRX8639486.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:37:48: 19000000 INFO @ Wed, 22 Jul 2020 15:37:53: 20000000 INFO @ Wed, 22 Jul 2020 15:37:58: 21000000 INFO @ Wed, 22 Jul 2020 15:38:03: 22000000 INFO @ Wed, 22 Jul 2020 15:38:04: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:38:04: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:38:04: #1 total tags in treatment: 11029721 INFO @ Wed, 22 Jul 2020 15:38:04: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:38:04: #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 15:38:05: #1 tags after filtering in treatment: 7792652 INFO @ Wed, 22 Jul 2020 15:38:05: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 22 Jul 2020 15:38:05: #1 finished! INFO @ Wed, 22 Jul 2020 15:38:05: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:38:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:38:05: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:38:05: 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 15:38:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.20_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/SRX8639486/SRX8639486.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639486/SRX8639486.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling