Job ID = 7114400 SRX = SRX8462196 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:55:47 prefetch.2.10.7: 1) Downloading 'SRR11915655'... 2020-07-22T05:55:47 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:57:48 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:57:48 prefetch.2.10.7: 'SRR11915655' is valid 2020-07-22T05:57:48 prefetch.2.10.7: 1) 'SRR11915655' was downloaded successfully 2020-07-22T05:57:48 prefetch.2.10.7: 'SRR11915655' has 0 unresolved dependencies Read 6303774 spots for SRR11915655/SRR11915655.sra Written 6303774 spots for SRR11915655/SRR11915655.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:23 6303774 reads; of these: 6303774 (100.00%) were paired; of these: 644051 (10.22%) aligned concordantly 0 times 4724039 (74.94%) aligned concordantly exactly 1 time 935684 (14.84%) aligned concordantly >1 times ---- 644051 pairs aligned concordantly 0 times; of these: 32016 (4.97%) aligned discordantly 1 time ---- 612035 pairs aligned 0 times concordantly or discordantly; of these: 1224070 mates make up the pairs; of these: 1090276 (89.07%) aligned 0 times 97596 (7.97%) aligned exactly 1 time 36198 (2.96%) aligned >1 times 91.35% overall alignment rate Time searching: 00:05:24 Overall time: 00:05:24 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 8 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] 1348405 / 5684862 = 0.2372 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 15:07:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.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 15:07:49: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:07:49: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:07:56: 1000000 INFO @ Wed, 22 Jul 2020 15:08:02: 2000000 INFO @ Wed, 22 Jul 2020 15:08:09: 3000000 INFO @ Wed, 22 Jul 2020 15:08:15: 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 15:08:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.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 15:08:19: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:08:19: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:08:21: 5000000 INFO @ Wed, 22 Jul 2020 15:08:26: 1000000 INFO @ Wed, 22 Jul 2020 15:08:27: 6000000 INFO @ Wed, 22 Jul 2020 15:08:33: 7000000 INFO @ Wed, 22 Jul 2020 15:08:33: 2000000 INFO @ Wed, 22 Jul 2020 15:08:39: 8000000 INFO @ Wed, 22 Jul 2020 15:08:40: 3000000 INFO @ Wed, 22 Jul 2020 15:08:44: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:08:44: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:08:44: #1 total tags in treatment: 4313337 INFO @ Wed, 22 Jul 2020 15:08:44: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:08:44: #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 15:08:44: #1 tags after filtering in treatment: 3419015 INFO @ Wed, 22 Jul 2020 15:08:44: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 22 Jul 2020 15:08:44: #1 finished! INFO @ Wed, 22 Jul 2020 15:08:44: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:08:44: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:08:45: #2 number of paired peaks: 29 WARNING @ Wed, 22 Jul 2020 15:08:45: Too few paired peaks (29) 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 15:08:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.05_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/SRX8462196/SRX8462196.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:08:47: 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 15:08:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.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 15:08:49: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:08:49: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:08:54: 5000000 INFO @ Wed, 22 Jul 2020 15:08:55: 1000000 INFO @ Wed, 22 Jul 2020 15:09:01: 6000000 INFO @ Wed, 22 Jul 2020 15:09:02: 2000000 INFO @ Wed, 22 Jul 2020 15:09:08: 3000000 INFO @ Wed, 22 Jul 2020 15:09:08: 7000000 INFO @ Wed, 22 Jul 2020 15:09:14: 4000000 INFO @ Wed, 22 Jul 2020 15:09:15: 8000000 INFO @ Wed, 22 Jul 2020 15:09:20: 5000000 INFO @ Wed, 22 Jul 2020 15:09:21: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:09:21: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:09:21: #1 total tags in treatment: 4313337 INFO @ Wed, 22 Jul 2020 15:09:21: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:09:21: #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 15:09:21: #1 tags after filtering in treatment: 3419015 INFO @ Wed, 22 Jul 2020 15:09:21: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 22 Jul 2020 15:09:21: #1 finished! INFO @ Wed, 22 Jul 2020 15:09:21: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:09:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:09:21: #2 number of paired peaks: 29 WARNING @ Wed, 22 Jul 2020 15:09:21: Too few paired peaks (29) 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 15:09:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.10_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/SRX8462196/SRX8462196.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:09:26: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:09:32: 7000000 INFO @ Wed, 22 Jul 2020 15:09:38: 8000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:09:42: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:09:42: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:09:42: #1 total tags in treatment: 4313337 INFO @ Wed, 22 Jul 2020 15:09:42: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:09:42: #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 15:09:42: #1 tags after filtering in treatment: 3419015 INFO @ Wed, 22 Jul 2020 15:09:42: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 22 Jul 2020 15:09:42: #1 finished! INFO @ Wed, 22 Jul 2020 15:09:42: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:09:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:09:43: #2 number of paired peaks: 29 WARNING @ Wed, 22 Jul 2020 15:09:43: Too few paired peaks (29) 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 15:09:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.20_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/SRX8462196/SRX8462196.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462196/SRX8462196.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling