Job ID = 14521797 SRX = SRX9399068 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5134846 spots for SRR12935349/SRR12935349.sra Written 5134846 spots for SRR12935349/SRR12935349.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: 00:07:49 5134846 reads; of these: 5134846 (100.00%) were paired; of these: 3641083 (70.91%) aligned concordantly 0 times 1360624 (26.50%) aligned concordantly exactly 1 time 133139 (2.59%) aligned concordantly >1 times ---- 3641083 pairs aligned concordantly 0 times; of these: 986398 (27.09%) aligned discordantly 1 time ---- 2654685 pairs aligned 0 times concordantly or discordantly; of these: 5309370 mates make up the pairs; of these: 4605332 (86.74%) aligned 0 times 448442 (8.45%) aligned exactly 1 time 255596 (4.81%) aligned >1 times 55.16% overall alignment rate Time searching: 00:07:49 Overall time: 00:07:49 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] 214214 / 2417471 = 0.0886 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 21:49:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.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 21:49:32: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:49:32: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:49:42: 1000000 INFO @ Sat, 15 Jan 2022 21:49:52: 2000000 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 21:50:02: 3000000 INFO @ Sat, 15 Jan 2022 21:50:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.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 21:50:03: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:50:03: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:50:13: 4000000 INFO @ Sat, 15 Jan 2022 21:50:16: 1000000 INFO @ Sat, 15 Jan 2022 21:50:23: 5000000 INFO @ Sat, 15 Jan 2022 21:50:26: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 21:50:26: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 21:50:26: #1 total tags in treatment: 1359775 INFO @ Sat, 15 Jan 2022 21:50:26: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:50:26: #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 21:50:26: #1 tags after filtering in treatment: 1189216 INFO @ Sat, 15 Jan 2022 21:50:26: #1 Redundant rate of treatment: 0.13 INFO @ Sat, 15 Jan 2022 21:50:26: #1 finished! INFO @ Sat, 15 Jan 2022 21:50:26: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:50:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:50:26: #2 number of paired peaks: 5 WARNING @ Sat, 15 Jan 2022 21:50:26: Too few paired peaks (5) 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 21:50:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:50:29: 2000000 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 21:50:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.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 21:50:33: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:50:33: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:50:42: 3000000 INFO @ Sat, 15 Jan 2022 21:50:44: 1000000 INFO @ Sat, 15 Jan 2022 21:50:55: 2000000 INFO @ Sat, 15 Jan 2022 21:50:55: 4000000 INFO @ Sat, 15 Jan 2022 21:51:06: 3000000 INFO @ Sat, 15 Jan 2022 21:51:09: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:51:12: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 21:51:12: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 21:51:12: #1 total tags in treatment: 1359775 INFO @ Sat, 15 Jan 2022 21:51:12: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:51:12: #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 21:51:12: #1 tags after filtering in treatment: 1189216 INFO @ Sat, 15 Jan 2022 21:51:12: #1 Redundant rate of treatment: 0.13 INFO @ Sat, 15 Jan 2022 21:51:12: #1 finished! INFO @ Sat, 15 Jan 2022 21:51:12: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:51:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:51:12: #2 number of paired peaks: 5 WARNING @ Sat, 15 Jan 2022 21:51:12: Too few paired peaks (5) 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 21:51:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.10_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/SRX9399068/SRX9399068.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:51:17: 4000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:51:28: 5000000 INFO @ Sat, 15 Jan 2022 21:51:30: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 21:51:30: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 21:51:30: #1 total tags in treatment: 1359775 INFO @ Sat, 15 Jan 2022 21:51:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:51:30: #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 21:51:30: #1 tags after filtering in treatment: 1189216 INFO @ Sat, 15 Jan 2022 21:51:30: #1 Redundant rate of treatment: 0.13 INFO @ Sat, 15 Jan 2022 21:51:30: #1 finished! INFO @ Sat, 15 Jan 2022 21:51:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:51:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:51:30: #2 number of paired peaks: 5 WARNING @ Sat, 15 Jan 2022 21:51:30: Too few paired peaks (5) 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 21:51:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.20_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/SRX9399068/SRX9399068.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399068/SRX9399068.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling