Job ID = 10224091 SRX = SRX8952647 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13110312 spots for SRR12458239/SRR12458239.sra Written 13110312 spots for SRR12458239/SRR12458239.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: 00:04:23 13110312 reads; of these: 13110312 (100.00%) were paired; of these: 6666427 (50.85%) aligned concordantly 0 times 5651574 (43.11%) aligned concordantly exactly 1 time 792311 (6.04%) aligned concordantly >1 times ---- 6666427 pairs aligned concordantly 0 times; of these: 292435 (4.39%) aligned discordantly 1 time ---- 6373992 pairs aligned 0 times concordantly or discordantly; of these: 12747984 mates make up the pairs; of these: 11987216 (94.03%) aligned 0 times 501345 (3.93%) aligned exactly 1 time 259423 (2.04%) aligned >1 times 54.28% overall alignment rate Time searching: 00:04:23 Overall time: 00:04:23 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_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] 1410390 / 6713513 = 0.2101 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 @ Fri, 16 Oct 2020 09:31:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.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 @ Fri, 16 Oct 2020 09:31:02: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:31:02: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:31:08: 1000000 INFO @ Fri, 16 Oct 2020 09:31:15: 2000000 INFO @ Fri, 16 Oct 2020 09:31:21: 3000000 INFO @ Fri, 16 Oct 2020 09:31:28: 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 @ Fri, 16 Oct 2020 09:31:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.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 @ Fri, 16 Oct 2020 09:31:32: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:31:32: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:31:35: 5000000 INFO @ Fri, 16 Oct 2020 09:31:39: 1000000 INFO @ Fri, 16 Oct 2020 09:31:42: 6000000 INFO @ Fri, 16 Oct 2020 09:31:45: 2000000 INFO @ Fri, 16 Oct 2020 09:31:50: 7000000 INFO @ Fri, 16 Oct 2020 09:31:52: 3000000 INFO @ Fri, 16 Oct 2020 09:31:57: 8000000 INFO @ Fri, 16 Oct 2020 09:31:58: 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 @ Fri, 16 Oct 2020 09:32:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.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 @ Fri, 16 Oct 2020 09:32:02: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:32:02: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:32:05: 9000000 INFO @ Fri, 16 Oct 2020 09:32:05: 5000000 INFO @ Fri, 16 Oct 2020 09:32:09: 1000000 INFO @ Fri, 16 Oct 2020 09:32:12: 6000000 INFO @ Fri, 16 Oct 2020 09:32:12: 10000000 INFO @ Fri, 16 Oct 2020 09:32:17: 2000000 INFO @ Fri, 16 Oct 2020 09:32:19: 7000000 INFO @ Fri, 16 Oct 2020 09:32:20: 11000000 INFO @ Fri, 16 Oct 2020 09:32:23: #1 tag size is determined as 45 bps INFO @ Fri, 16 Oct 2020 09:32:23: #1 tag size = 45 INFO @ Fri, 16 Oct 2020 09:32:23: #1 total tags in treatment: 5064934 INFO @ Fri, 16 Oct 2020 09:32:23: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:32:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:32:23: #1 tags after filtering in treatment: 4132045 INFO @ Fri, 16 Oct 2020 09:32:23: #1 Redundant rate of treatment: 0.18 INFO @ Fri, 16 Oct 2020 09:32:23: #1 finished! INFO @ Fri, 16 Oct 2020 09:32:23: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:32:23: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:32:23: #2 number of paired peaks: 30 WARNING @ Fri, 16 Oct 2020 09:32:23: Too few paired peaks (30) 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 @ Fri, 16 Oct 2020 09:32:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.05_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/SRX8952647/SRX8952647.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:32:24: 3000000 INFO @ Fri, 16 Oct 2020 09:32:25: 8000000 INFO @ Fri, 16 Oct 2020 09:32:32: 4000000 INFO @ Fri, 16 Oct 2020 09:32:32: 9000000 INFO @ Fri, 16 Oct 2020 09:32:39: 10000000 INFO @ Fri, 16 Oct 2020 09:32:39: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 09:32:46: 11000000 INFO @ Fri, 16 Oct 2020 09:32:47: 6000000 INFO @ Fri, 16 Oct 2020 09:32:48: #1 tag size is determined as 45 bps INFO @ Fri, 16 Oct 2020 09:32:48: #1 tag size = 45 INFO @ Fri, 16 Oct 2020 09:32:48: #1 total tags in treatment: 5064934 INFO @ Fri, 16 Oct 2020 09:32:48: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:32:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:32:48: #1 tags after filtering in treatment: 4132045 INFO @ Fri, 16 Oct 2020 09:32:48: #1 Redundant rate of treatment: 0.18 INFO @ Fri, 16 Oct 2020 09:32:48: #1 finished! INFO @ Fri, 16 Oct 2020 09:32:48: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:32:48: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:32:49: #2 number of paired peaks: 30 WARNING @ Fri, 16 Oct 2020 09:32:49: Too few paired peaks (30) 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 @ Fri, 16 Oct 2020 09:32:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.10_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/SRX8952647/SRX8952647.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 09:32:54: 7000000 INFO @ Fri, 16 Oct 2020 09:33:01: 8000000 INFO @ Fri, 16 Oct 2020 09:33:07: 9000000 INFO @ Fri, 16 Oct 2020 09:33:14: 10000000 INFO @ Fri, 16 Oct 2020 09:33:21: 11000000 INFO @ Fri, 16 Oct 2020 09:33:24: #1 tag size is determined as 45 bps INFO @ Fri, 16 Oct 2020 09:33:24: #1 tag size = 45 INFO @ Fri, 16 Oct 2020 09:33:24: #1 total tags in treatment: 5064934 INFO @ Fri, 16 Oct 2020 09:33:24: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:33:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:33:24: #1 tags after filtering in treatment: 4132045 INFO @ Fri, 16 Oct 2020 09:33:24: #1 Redundant rate of treatment: 0.18 INFO @ Fri, 16 Oct 2020 09:33:24: #1 finished! INFO @ Fri, 16 Oct 2020 09:33:24: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:33:24: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:33:24: #2 number of paired peaks: 30 WARNING @ Fri, 16 Oct 2020 09:33:24: Too few paired peaks (30) 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 @ Fri, 16 Oct 2020 09:33:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.20_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/SRX8952647/SRX8952647.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling