Job ID = 5791156 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 9,745,035 reads read : 19,490,070 reads written : 19,490,070 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:11:48 9745035 reads; of these: 9745035 (100.00%) were paired; of these: 7575799 (77.74%) aligned concordantly 0 times 720297 (7.39%) aligned concordantly exactly 1 time 1448939 (14.87%) aligned concordantly >1 times ---- 7575799 pairs aligned concordantly 0 times; of these: 1328350 (17.53%) aligned discordantly 1 time ---- 6247449 pairs aligned 0 times concordantly or discordantly; of these: 12494898 mates make up the pairs; of these: 8282366 (66.29%) aligned 0 times 174387 (1.40%) aligned exactly 1 time 4038145 (32.32%) aligned >1 times 57.50% overall alignment rate Time searching: 00:11:48 Overall time: 00:11:48 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] 1425767 / 3378419 = 0.4220 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 Apr 2020 09:12:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.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 Apr 2020 09:12:06: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:12:06: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:12:13: 1000000 INFO @ Wed, 22 Apr 2020 09:12:19: 2000000 INFO @ Wed, 22 Apr 2020 09:12:26: 3000000 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 Apr 2020 09:12:32: 4000000 INFO @ Wed, 22 Apr 2020 09:12:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.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 Apr 2020 09:12:35: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:12:35: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:12:38: 5000000 INFO @ Wed, 22 Apr 2020 09:12:42: 1000000 INFO @ Wed, 22 Apr 2020 09:12:45: 6000000 INFO @ Wed, 22 Apr 2020 09:12:50: 2000000 INFO @ Wed, 22 Apr 2020 09:12:52: 7000000 INFO @ Wed, 22 Apr 2020 09:12:57: 3000000 INFO @ Wed, 22 Apr 2020 09:12:59: 8000000 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 Apr 2020 09:13:02: #1 tag size is determined as 151 bps INFO @ Wed, 22 Apr 2020 09:13:02: #1 tag size = 151 INFO @ Wed, 22 Apr 2020 09:13:02: #1 total tags in treatment: 1000595 INFO @ Wed, 22 Apr 2020 09:13:02: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:13:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 09:13:02: #1 tags after filtering in treatment: 638069 INFO @ Wed, 22 Apr 2020 09:13:02: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Apr 2020 09:13:02: #1 finished! INFO @ Wed, 22 Apr 2020 09:13:02: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:13:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:13:02: #2 number of paired peaks: 57 WARNING @ Wed, 22 Apr 2020 09:13:02: Too few paired peaks (57) 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 Apr 2020 09:13:02: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 09:13:03: 4000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.05_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/SRX6614950/SRX6614950.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:13:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.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 Apr 2020 09:13:05: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:13:05: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:13:10: 5000000 INFO @ Wed, 22 Apr 2020 09:13:12: 1000000 INFO @ Wed, 22 Apr 2020 09:13:17: 6000000 INFO @ Wed, 22 Apr 2020 09:13:20: 2000000 INFO @ Wed, 22 Apr 2020 09:13:24: 7000000 INFO @ Wed, 22 Apr 2020 09:13:27: 3000000 INFO @ Wed, 22 Apr 2020 09:13:31: 8000000 INFO @ Wed, 22 Apr 2020 09:13:34: #1 tag size is determined as 151 bps INFO @ Wed, 22 Apr 2020 09:13:34: #1 tag size = 151 INFO @ Wed, 22 Apr 2020 09:13:34: #1 total tags in treatment: 1000595 INFO @ Wed, 22 Apr 2020 09:13:34: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:13:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 09:13:34: #1 tags after filtering in treatment: 638069 INFO @ Wed, 22 Apr 2020 09:13:34: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Apr 2020 09:13:34: #1 finished! INFO @ Wed, 22 Apr 2020 09:13:34: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:13:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:13:34: #2 number of paired peaks: 57 WARNING @ Wed, 22 Apr 2020 09:13:34: Too few paired peaks (57) 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 Apr 2020 09:13:34: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 09:13:34: 4000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.10_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/SRX6614950/SRX6614950.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:13:40: 5000000 INFO @ Wed, 22 Apr 2020 09:13:47: 6000000 INFO @ Wed, 22 Apr 2020 09:13:53: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 09:14:00: 8000000 INFO @ Wed, 22 Apr 2020 09:14:03: #1 tag size is determined as 151 bps INFO @ Wed, 22 Apr 2020 09:14:03: #1 tag size = 151 INFO @ Wed, 22 Apr 2020 09:14:03: #1 total tags in treatment: 1000595 INFO @ Wed, 22 Apr 2020 09:14:03: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:14:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 09:14:03: #1 tags after filtering in treatment: 638069 INFO @ Wed, 22 Apr 2020 09:14:03: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Apr 2020 09:14:03: #1 finished! INFO @ Wed, 22 Apr 2020 09:14:03: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:14:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:14:03: #2 number of paired peaks: 57 WARNING @ Wed, 22 Apr 2020 09:14:03: Too few paired peaks (57) 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 Apr 2020 09:14:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.20_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/SRX6614950/SRX6614950.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614950/SRX6614950.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。