Job ID = 7109379 SRX = SRX8036504 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13986066 spots for SRR11458951/SRR11458951.sra Written 13986066 spots for SRR11458951/SRR11458951.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: 00:07:55 13986066 reads; of these: 13986066 (100.00%) were paired; of these: 9115529 (65.18%) aligned concordantly 0 times 4091300 (29.25%) aligned concordantly exactly 1 time 779237 (5.57%) aligned concordantly >1 times ---- 9115529 pairs aligned concordantly 0 times; of these: 10633 (0.12%) aligned discordantly 1 time ---- 9104896 pairs aligned 0 times concordantly or discordantly; of these: 18209792 mates make up the pairs; of these: 18178512 (99.83%) aligned 0 times 19702 (0.11%) aligned exactly 1 time 11578 (0.06%) aligned >1 times 35.01% overall alignment rate Time searching: 00:07:55 Overall time: 00:07:55 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] 1000650 / 4879914 = 0.2051 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 13:57:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.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 13:57:43: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:57:43: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:57:53: 1000000 INFO @ Wed, 22 Jul 2020 13:58:03: 2000000 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 13:58:12: 3000000 INFO @ Wed, 22 Jul 2020 13:58:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.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 13:58:13: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:58:13: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:58:23: 4000000 INFO @ Wed, 22 Jul 2020 13:58:24: 1000000 INFO @ Wed, 22 Jul 2020 13:58:35: 5000000 INFO @ Wed, 22 Jul 2020 13:58:35: 2000000 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 13:58:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.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 13:58:43: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:58:43: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:58:45: 6000000 INFO @ Wed, 22 Jul 2020 13:58:47: 3000000 INFO @ Wed, 22 Jul 2020 13:58:54: 1000000 INFO @ Wed, 22 Jul 2020 13:58:56: 7000000 INFO @ Wed, 22 Jul 2020 13:58:58: 4000000 INFO @ Wed, 22 Jul 2020 13:59:05: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:59:05: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:59:05: #1 total tags in treatment: 3871063 INFO @ Wed, 22 Jul 2020 13:59:05: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:59:05: #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 13:59:05: #1 tags after filtering in treatment: 3178122 INFO @ Wed, 22 Jul 2020 13:59:05: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Jul 2020 13:59:05: #1 finished! INFO @ Wed, 22 Jul 2020 13:59:05: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:59:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:59:05: #2 number of paired peaks: 41 WARNING @ Wed, 22 Jul 2020 13:59:05: Too few paired peaks (41) 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 13:59:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.05_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/SRX8036504/SRX8036504.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:59:06: 2000000 INFO @ Wed, 22 Jul 2020 13:59:09: 5000000 INFO @ Wed, 22 Jul 2020 13:59:17: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 13:59:20: 6000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 13:59:28: 4000000 INFO @ Wed, 22 Jul 2020 13:59:31: 7000000 INFO @ Wed, 22 Jul 2020 13:59:39: 5000000 INFO @ Wed, 22 Jul 2020 13:59:39: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:59:39: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:59:39: #1 total tags in treatment: 3871063 INFO @ Wed, 22 Jul 2020 13:59:39: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:59:39: #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 13:59:39: #1 tags after filtering in treatment: 3178122 INFO @ Wed, 22 Jul 2020 13:59:39: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Jul 2020 13:59:39: #1 finished! INFO @ Wed, 22 Jul 2020 13:59:39: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:59:39: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:59:39: #2 number of paired peaks: 41 WARNING @ Wed, 22 Jul 2020 13:59:39: Too few paired peaks (41) 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 13:59:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.10_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/SRX8036504/SRX8036504.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:59:49: 6000000 INFO @ Wed, 22 Jul 2020 13:59:59: 7000000 INFO @ Wed, 22 Jul 2020 14:00:07: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:00:07: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:00:07: #1 total tags in treatment: 3871063 INFO @ Wed, 22 Jul 2020 14:00:07: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:00:07: #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 14:00:07: #1 tags after filtering in treatment: 3178122 INFO @ Wed, 22 Jul 2020 14:00:07: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Jul 2020 14:00:07: #1 finished! INFO @ Wed, 22 Jul 2020 14:00:07: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:00:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:00:07: #2 number of paired peaks: 41 WARNING @ Wed, 22 Jul 2020 14:00:07: Too few paired peaks (41) 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 14:00:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.20_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/SRX8036504/SRX8036504.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036504/SRX8036504.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling