Job ID = 14521737 SRX = SRX9399167 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5221392 spots for SRR12935448/SRR12935448.sra Written 5221392 spots for SRR12935448/SRR12935448.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: 00:02:01 5221392 reads; of these: 5221392 (100.00%) were paired; of these: 807086 (15.46%) aligned concordantly 0 times 3749513 (71.81%) aligned concordantly exactly 1 time 664793 (12.73%) aligned concordantly >1 times ---- 807086 pairs aligned concordantly 0 times; of these: 50446 (6.25%) aligned discordantly 1 time ---- 756640 pairs aligned 0 times concordantly or discordantly; of these: 1513280 mates make up the pairs; of these: 1361569 (89.97%) aligned 0 times 111464 (7.37%) aligned exactly 1 time 40247 (2.66%) aligned >1 times 86.96% overall alignment rate Time searching: 00:02:01 Overall time: 00:02:01 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] 2868681 / 4456156 = 0.6438 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 21:34:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.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 21:34:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:34:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:34:15: 1000000 INFO @ Sat, 15 Jan 2022 21:34:20: 2000000 INFO @ Sat, 15 Jan 2022 21:34:25: 3000000 INFO @ Sat, 15 Jan 2022 21:34:26: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:34:26: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:34:26: #1 total tags in treatment: 1557926 INFO @ Sat, 15 Jan 2022 21:34:26: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:34:26: #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 21:34:26: #1 tags after filtering in treatment: 1268775 INFO @ Sat, 15 Jan 2022 21:34:26: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 21:34:26: #1 finished! INFO @ Sat, 15 Jan 2022 21:34:26: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:34:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:34:27: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 21:34:27: Too few paired peaks (32) 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 21:34:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.05_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/SRX9399167/SRX9399167.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 21:34:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.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 21:34:39: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:34:39: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:34:45: 1000000 INFO @ Sat, 15 Jan 2022 21:34:50: 2000000 INFO @ Sat, 15 Jan 2022 21:34:55: 3000000 INFO @ Sat, 15 Jan 2022 21:34:56: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:34:56: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:34:56: #1 total tags in treatment: 1557926 INFO @ Sat, 15 Jan 2022 21:34:56: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:34:56: #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 21:34:56: #1 tags after filtering in treatment: 1268775 INFO @ Sat, 15 Jan 2022 21:34:56: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 21:34:56: #1 finished! INFO @ Sat, 15 Jan 2022 21:34:56: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:34:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:34:57: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 21:34:57: Too few paired peaks (32) 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 21:34:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.10_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/SRX9399167/SRX9399167.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 21:35:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.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 21:35:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:35:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:35:14: 1000000 INFO @ Sat, 15 Jan 2022 21:35:18: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:35:26: 3000000 INFO @ Sat, 15 Jan 2022 21:35:27: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:35:27: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:35:27: #1 total tags in treatment: 1557926 INFO @ Sat, 15 Jan 2022 21:35:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:35:27: #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 21:35:27: #1 tags after filtering in treatment: 1268775 INFO @ Sat, 15 Jan 2022 21:35:27: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 21:35:27: #1 finished! INFO @ Sat, 15 Jan 2022 21:35:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:35:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:35:28: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 21:35:28: Too few paired peaks (32) 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 21:35:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.20_peaks.narrowPeak: No such file or directory BigWig に変換しました。 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399167/SRX9399167.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling