Job ID = 14521955 SRX = SRX10459798 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6187114 spots for SRR14085597/SRR14085597.sra Written 6187114 spots for SRR14085597/SRR14085597.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: 00:05:14 6187114 reads; of these: 6187114 (100.00%) were paired; of these: 1442585 (23.32%) aligned concordantly 0 times 3768305 (60.91%) aligned concordantly exactly 1 time 976224 (15.78%) aligned concordantly >1 times ---- 1442585 pairs aligned concordantly 0 times; of these: 62214 (4.31%) aligned discordantly 1 time ---- 1380371 pairs aligned 0 times concordantly or discordantly; of these: 2760742 mates make up the pairs; of these: 2615289 (94.73%) aligned 0 times 77270 (2.80%) aligned exactly 1 time 68183 (2.47%) aligned >1 times 78.87% overall alignment rate Time searching: 00:05:14 Overall time: 00:05:14 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] 1085568 / 4798200 = 0.2262 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 22:02:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.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 22:02:37: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:02:37: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:02:43: 1000000 INFO @ Sat, 15 Jan 2022 22:02:48: 2000000 INFO @ Sat, 15 Jan 2022 22:02:54: 3000000 INFO @ Sat, 15 Jan 2022 22:03:00: 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 22:03:05: 5000000 INFO @ Sat, 15 Jan 2022 22:03:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.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 22:03:07: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:03:07: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:03:10: 6000000 INFO @ Sat, 15 Jan 2022 22:03:13: 1000000 INFO @ Sat, 15 Jan 2022 22:03:16: 7000000 INFO @ Sat, 15 Jan 2022 22:03:18: 2000000 INFO @ Sat, 15 Jan 2022 22:03:20: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 22:03:20: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 22:03:20: #1 total tags in treatment: 3668558 INFO @ Sat, 15 Jan 2022 22:03:20: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:03:20: #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 22:03:20: #1 tags after filtering in treatment: 2708945 INFO @ Sat, 15 Jan 2022 22:03:20: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 22:03:20: #1 finished! INFO @ Sat, 15 Jan 2022 22:03:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:03:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:03:20: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 22:03:20: Too few paired peaks (34) 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 22:03:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.05_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/SRX10459798/SRX10459798.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:03:23: 3000000 INFO @ Sat, 15 Jan 2022 22:03:29: 4000000 INFO @ Sat, 15 Jan 2022 22:03:35: 5000000 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 22:03:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.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 22:03:37: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:03:37: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:03:41: 6000000 INFO @ Sat, 15 Jan 2022 22:03:44: 1000000 INFO @ Sat, 15 Jan 2022 22:03:47: 7000000 INFO @ Sat, 15 Jan 2022 22:03:50: 2000000 INFO @ Sat, 15 Jan 2022 22:03:51: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 22:03:51: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 22:03:51: #1 total tags in treatment: 3668558 INFO @ Sat, 15 Jan 2022 22:03:51: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:03:51: #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 22:03:51: #1 tags after filtering in treatment: 2708945 INFO @ Sat, 15 Jan 2022 22:03:51: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 22:03:51: #1 finished! INFO @ Sat, 15 Jan 2022 22:03:51: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:03:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:03:52: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 22:03:52: Too few paired peaks (34) 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 22:03:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.10_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/SRX10459798/SRX10459798.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:03:56: 3000000 INFO @ Sat, 15 Jan 2022 22:04:01: 4000000 INFO @ Sat, 15 Jan 2022 22:04:06: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:04:12: 6000000 INFO @ Sat, 15 Jan 2022 22:04:18: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:04:22: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 22:04:22: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 22:04:22: #1 total tags in treatment: 3668558 INFO @ Sat, 15 Jan 2022 22:04:22: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:04:22: #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 22:04:22: #1 tags after filtering in treatment: 2708945 INFO @ Sat, 15 Jan 2022 22:04:22: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 22:04:22: #1 finished! INFO @ Sat, 15 Jan 2022 22:04:22: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:04:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:04:22: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 22:04:22: Too few paired peaks (34) 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 22:04:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.20_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/SRX10459798/SRX10459798.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10459798/SRX10459798.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling