Job ID = 14521116 SRX = SRX10828615 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7553324 spots for SRR14480440/SRR14480440.sra Written 7553324 spots for SRR14480440/SRR14480440.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: 00:05:51 7553324 reads; of these: 7553324 (100.00%) were paired; of these: 1301876 (17.24%) aligned concordantly 0 times 5163971 (68.37%) aligned concordantly exactly 1 time 1087477 (14.40%) aligned concordantly >1 times ---- 1301876 pairs aligned concordantly 0 times; of these: 116898 (8.98%) aligned discordantly 1 time ---- 1184978 pairs aligned 0 times concordantly or discordantly; of these: 2369956 mates make up the pairs; of these: 2184206 (92.16%) aligned 0 times 116771 (4.93%) aligned exactly 1 time 68979 (2.91%) aligned >1 times 85.54% overall alignment rate Time searching: 00:05:51 Overall time: 00:05:51 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] 2097413 / 6355366 = 0.3300 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 20:36:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.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 @ Sat, 15 Jan 2022 20:36:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:36:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:36:35: 1000000 INFO @ Sat, 15 Jan 2022 20:36:41: 2000000 INFO @ Sat, 15 Jan 2022 20:36:47: 3000000 INFO @ Sat, 15 Jan 2022 20:36:53: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 20:36:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.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 @ Sat, 15 Jan 2022 20:36:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:36:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:36:59: 5000000 INFO @ Sat, 15 Jan 2022 20:37:05: 1000000 INFO @ Sat, 15 Jan 2022 20:37:06: 6000000 INFO @ Sat, 15 Jan 2022 20:37:12: 2000000 INFO @ Sat, 15 Jan 2022 20:37:12: 7000000 INFO @ Sat, 15 Jan 2022 20:37:18: 8000000 INFO @ Sat, 15 Jan 2022 20:37:18: 3000000 INFO @ Sat, 15 Jan 2022 20:37:23: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:37:23: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:37:23: #1 total tags in treatment: 4182711 INFO @ Sat, 15 Jan 2022 20:37:23: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:37:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 20:37:23: #1 tags after filtering in treatment: 2895968 INFO @ Sat, 15 Jan 2022 20:37:23: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 20:37:23: #1 finished! INFO @ Sat, 15 Jan 2022 20:37:23: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:37:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:37:23: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 20:37:23: Too few paired peaks (27) 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 @ Sat, 15 Jan 2022 20:37:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.05_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/SRX10828615/SRX10828615.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:37:25: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 20:37:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.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 @ Sat, 15 Jan 2022 20:37:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:37:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:37:31: 5000000 INFO @ Sat, 15 Jan 2022 20:37:35: 1000000 INFO @ Sat, 15 Jan 2022 20:37:37: 6000000 INFO @ Sat, 15 Jan 2022 20:37:41: 2000000 INFO @ Sat, 15 Jan 2022 20:37:44: 7000000 INFO @ Sat, 15 Jan 2022 20:37:47: 3000000 INFO @ Sat, 15 Jan 2022 20:37:50: 8000000 INFO @ Sat, 15 Jan 2022 20:37:53: 4000000 INFO @ Sat, 15 Jan 2022 20:37:55: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:37:55: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:37:55: #1 total tags in treatment: 4182711 INFO @ Sat, 15 Jan 2022 20:37:55: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:37:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 20:37:55: #1 tags after filtering in treatment: 2895968 INFO @ Sat, 15 Jan 2022 20:37:55: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 20:37:55: #1 finished! INFO @ Sat, 15 Jan 2022 20:37:55: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:37:55: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:37:55: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 20:37:55: Too few paired peaks (27) 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 @ Sat, 15 Jan 2022 20:37:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.10_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/SRX10828615/SRX10828615.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:37:58: 5000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:38:04: 6000000 INFO @ Sat, 15 Jan 2022 20:38:09: 7000000 INFO @ Sat, 15 Jan 2022 20:38:14: 8000000 INFO @ Sat, 15 Jan 2022 20:38:17: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:38:17: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:38:17: #1 total tags in treatment: 4182711 INFO @ Sat, 15 Jan 2022 20:38:17: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:38:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 20:38:17: #1 tags after filtering in treatment: 2895968 INFO @ Sat, 15 Jan 2022 20:38:17: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 20:38:17: #1 finished! INFO @ Sat, 15 Jan 2022 20:38:17: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:38:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:38:18: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 20:38:18: Too few paired peaks (27) 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 @ Sat, 15 Jan 2022 20:38:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.20_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/SRX10828615/SRX10828615.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828615/SRX10828615.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling