Job ID = 7115293 SRX = SRX8462230 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:07:46 prefetch.2.10.7: 1) Downloading 'SRR11915689'... 2020-07-22T06:07:46 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:08:24 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:08:24 prefetch.2.10.7: 'SRR11915689' is valid 2020-07-22T06:08:24 prefetch.2.10.7: 1) 'SRR11915689' was downloaded successfully 2020-07-22T06:08:24 prefetch.2.10.7: 'SRR11915689' has 0 unresolved dependencies Read 2883056 spots for SRR11915689/SRR11915689.sra Written 2883056 spots for SRR11915689/SRR11915689.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: 00:02:23 2883056 reads; of these: 2883056 (100.00%) were paired; of these: 202493 (7.02%) aligned concordantly 0 times 2329863 (80.81%) aligned concordantly exactly 1 time 350700 (12.16%) aligned concordantly >1 times ---- 202493 pairs aligned concordantly 0 times; of these: 19436 (9.60%) aligned discordantly 1 time ---- 183057 pairs aligned 0 times concordantly or discordantly; of these: 366114 mates make up the pairs; of these: 302495 (82.62%) aligned 0 times 49124 (13.42%) aligned exactly 1 time 14495 (3.96%) aligned >1 times 94.75% overall alignment rate Time searching: 00:02:23 Overall time: 00:02:23 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_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] 607577 / 2696557 = 0.2253 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 15:13:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.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 15:13:15: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:13:15: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:13:21: 1000000 INFO @ Wed, 22 Jul 2020 15:13:26: 2000000 INFO @ Wed, 22 Jul 2020 15:13:32: 3000000 INFO @ Wed, 22 Jul 2020 15:13:38: 4000000 INFO @ Wed, 22 Jul 2020 15:13:40: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:13:40: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:13:40: #1 total tags in treatment: 2074397 INFO @ Wed, 22 Jul 2020 15:13:40: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:13:40: #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 15:13:40: #1 tags after filtering in treatment: 1816770 INFO @ Wed, 22 Jul 2020 15:13:40: #1 Redundant rate of treatment: 0.12 INFO @ Wed, 22 Jul 2020 15:13:40: #1 finished! INFO @ Wed, 22 Jul 2020 15:13:40: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:13:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:13:40: #2 number of paired peaks: 79 WARNING @ Wed, 22 Jul 2020 15:13:40: Too few paired peaks (79) 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 15:13:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.05_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/SRX8462230/SRX8462230.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.05_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 15:13:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.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 15:13:45: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:13:45: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:13:51: 1000000 INFO @ Wed, 22 Jul 2020 15:13:57: 2000000 INFO @ Wed, 22 Jul 2020 15:14:03: 3000000 INFO @ Wed, 22 Jul 2020 15:14:10: 4000000 INFO @ Wed, 22 Jul 2020 15:14:11: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:14:11: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:14:11: #1 total tags in treatment: 2074397 INFO @ Wed, 22 Jul 2020 15:14:11: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:14:11: #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 15:14:11: #1 tags after filtering in treatment: 1816770 INFO @ Wed, 22 Jul 2020 15:14:11: #1 Redundant rate of treatment: 0.12 INFO @ Wed, 22 Jul 2020 15:14:11: #1 finished! INFO @ Wed, 22 Jul 2020 15:14:11: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:14:11: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:14:11: #2 number of paired peaks: 79 WARNING @ Wed, 22 Jul 2020 15:14:11: Too few paired peaks (79) 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 15:14:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.10_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/SRX8462230/SRX8462230.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.10_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 15:14:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.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 15:14:15: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:14:15: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:14:22: 1000000 INFO @ Wed, 22 Jul 2020 15:14:29: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:14:36: 3000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:14:42: 4000000 INFO @ Wed, 22 Jul 2020 15:14:44: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:14:44: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:14:44: #1 total tags in treatment: 2074397 INFO @ Wed, 22 Jul 2020 15:14:44: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:14:44: #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 15:14:44: #1 tags after filtering in treatment: 1816770 INFO @ Wed, 22 Jul 2020 15:14:44: #1 Redundant rate of treatment: 0.12 INFO @ Wed, 22 Jul 2020 15:14:44: #1 finished! INFO @ Wed, 22 Jul 2020 15:14:44: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:14:44: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:14:44: #2 number of paired peaks: 79 WARNING @ Wed, 22 Jul 2020 15:14:44: Too few paired peaks (79) 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 15:14:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.20_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/SRX8462230/SRX8462230.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462230/SRX8462230.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling