Job ID = 7114979 SRX = SRX8462218 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 1326619 spots for SRR11915677/SRR11915677.sra Written 1326619 spots for SRR11915677/SRR11915677.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:01:04 1326619 reads; of these: 1326619 (100.00%) were paired; of these: 97012 (7.31%) aligned concordantly 0 times 1061345 (80.00%) aligned concordantly exactly 1 time 168262 (12.68%) aligned concordantly >1 times ---- 97012 pairs aligned concordantly 0 times; of these: 6253 (6.45%) aligned discordantly 1 time ---- 90759 pairs aligned 0 times concordantly or discordantly; of these: 181518 mates make up the pairs; of these: 150652 (83.00%) aligned 0 times 24361 (13.42%) aligned exactly 1 time 6505 (3.58%) aligned >1 times 94.32% overall alignment rate Time searching: 00:01:05 Overall time: 00:01:05 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_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] 78393 / 1232529 = 0.0636 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 15:06:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.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 15:06:12: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:06:12: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:06:18: 1000000 INFO @ Wed, 22 Jul 2020 15:06:24: 2000000 INFO @ Wed, 22 Jul 2020 15:06:26: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:06:26: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:06:26: #1 total tags in treatment: 1151301 INFO @ Wed, 22 Jul 2020 15:06:26: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:06:26: #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 15:06:26: #1 tags after filtering in treatment: 1053628 INFO @ Wed, 22 Jul 2020 15:06:26: #1 Redundant rate of treatment: 0.08 INFO @ Wed, 22 Jul 2020 15:06:26: #1 finished! INFO @ Wed, 22 Jul 2020 15:06:26: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:06:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:06:26: #2 number of paired peaks: 88 WARNING @ Wed, 22 Jul 2020 15:06:26: Too few paired peaks (88) 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 15:06:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.05_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/SRX8462218/SRX8462218.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 15:06:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.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 15:06:42: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:06:42: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:06:49: 1000000 INFO @ Wed, 22 Jul 2020 15:06:55: 2000000 INFO @ Wed, 22 Jul 2020 15:06:57: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:06:57: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:06:57: #1 total tags in treatment: 1151301 INFO @ Wed, 22 Jul 2020 15:06:57: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:06:57: #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 15:06:57: #1 tags after filtering in treatment: 1053628 INFO @ Wed, 22 Jul 2020 15:06:57: #1 Redundant rate of treatment: 0.08 INFO @ Wed, 22 Jul 2020 15:06:57: #1 finished! INFO @ Wed, 22 Jul 2020 15:06:57: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:06:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:06:57: #2 number of paired peaks: 88 WARNING @ Wed, 22 Jul 2020 15:06:57: Too few paired peaks (88) 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 15:06:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.10_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/SRX8462218/SRX8462218.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 15:07:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.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 15:07:12: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:07:12: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:07:20: 1000000 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:07:28: 2000000 INFO @ Wed, 22 Jul 2020 15:07:30: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:07:30: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:07:30: #1 total tags in treatment: 1151301 INFO @ Wed, 22 Jul 2020 15:07:30: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:07:30: #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 15:07:30: #1 tags after filtering in treatment: 1053628 INFO @ Wed, 22 Jul 2020 15:07:30: #1 Redundant rate of treatment: 0.08 INFO @ Wed, 22 Jul 2020 15:07:30: #1 finished! INFO @ Wed, 22 Jul 2020 15:07:30: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:07:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:07:31: #2 number of paired peaks: 88 WARNING @ Wed, 22 Jul 2020 15:07:31: Too few paired peaks (88) 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 15:07:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.20_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/SRX8462218/SRX8462218.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462218/SRX8462218.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling