Job ID = 14521459 SRX = SRX10828593 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5226592 spots for SRR14480418/SRR14480418.sra Written 5226592 spots for SRR14480418/SRR14480418.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: 00:02:50 5226592 reads; of these: 5226592 (100.00%) were paired; of these: 519228 (9.93%) aligned concordantly 0 times 4057970 (77.64%) aligned concordantly exactly 1 time 649394 (12.42%) aligned concordantly >1 times ---- 519228 pairs aligned concordantly 0 times; of these: 118899 (22.90%) aligned discordantly 1 time ---- 400329 pairs aligned 0 times concordantly or discordantly; of these: 800658 mates make up the pairs; of these: 629386 (78.61%) aligned 0 times 113912 (14.23%) aligned exactly 1 time 57360 (7.16%) aligned >1 times 93.98% overall alignment rate Time searching: 00:02:50 Overall time: 00:02:50 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] 468590 / 4772194 = 0.0982 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 21:05:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.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 21:05:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:05:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:05:59: 1000000 INFO @ Sat, 15 Jan 2022 21:06:03: 2000000 INFO @ Sat, 15 Jan 2022 21:06:08: 3000000 INFO @ Sat, 15 Jan 2022 21:06:13: 4000000 INFO @ Sat, 15 Jan 2022 21:06:18: 5000000 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 21:06:22: 6000000 INFO @ Sat, 15 Jan 2022 21:06:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.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 21:06:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:06:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:06:28: 7000000 INFO @ Sat, 15 Jan 2022 21:06:28: 1000000 INFO @ Sat, 15 Jan 2022 21:06:33: 8000000 INFO @ Sat, 15 Jan 2022 21:06:33: 2000000 INFO @ Sat, 15 Jan 2022 21:06:38: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:06:38: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:06:38: #1 total tags in treatment: 4242260 INFO @ Sat, 15 Jan 2022 21:06:38: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:06:38: #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 21:06:38: 3000000 INFO @ Sat, 15 Jan 2022 21:06:38: #1 tags after filtering in treatment: 2985079 INFO @ Sat, 15 Jan 2022 21:06:38: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:06:38: #1 finished! INFO @ Sat, 15 Jan 2022 21:06:38: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:06:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:06:38: #2 number of paired peaks: 7 WARNING @ Sat, 15 Jan 2022 21:06:38: Too few paired peaks (7) 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 21:06:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.05_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/SRX10828593/SRX10828593.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:06:42: 4000000 INFO @ Sat, 15 Jan 2022 21:06:47: 5000000 INFO @ Sat, 15 Jan 2022 21:06:51: 6000000 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 21:06:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.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 21:06:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:06:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:06:56: 7000000 INFO @ Sat, 15 Jan 2022 21:06:59: 1000000 INFO @ Sat, 15 Jan 2022 21:07:01: 8000000 INFO @ Sat, 15 Jan 2022 21:07:04: 2000000 INFO @ Sat, 15 Jan 2022 21:07:05: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:07:05: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:07:05: #1 total tags in treatment: 4242260 INFO @ Sat, 15 Jan 2022 21:07:05: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:07:05: #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 21:07:05: #1 tags after filtering in treatment: 2985079 INFO @ Sat, 15 Jan 2022 21:07:05: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:07:05: #1 finished! INFO @ Sat, 15 Jan 2022 21:07:05: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:07:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:07:05: #2 number of paired peaks: 7 WARNING @ Sat, 15 Jan 2022 21:07:05: Too few paired peaks (7) 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 21:07:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.10_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/SRX10828593/SRX10828593.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:07:09: 3000000 INFO @ Sat, 15 Jan 2022 21:07:14: 4000000 INFO @ Sat, 15 Jan 2022 21:07:19: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:07:24: 6000000 INFO @ Sat, 15 Jan 2022 21:07:30: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:07:35: 8000000 INFO @ Sat, 15 Jan 2022 21:07:39: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:07:39: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:07:39: #1 total tags in treatment: 4242260 INFO @ Sat, 15 Jan 2022 21:07:39: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:07:39: #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 21:07:39: #1 tags after filtering in treatment: 2985079 INFO @ Sat, 15 Jan 2022 21:07:39: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:07:39: #1 finished! INFO @ Sat, 15 Jan 2022 21:07:39: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:07:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:07:40: #2 number of paired peaks: 7 WARNING @ Sat, 15 Jan 2022 21:07:40: Too few paired peaks (7) 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 21:07:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.20_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/SRX10828593/SRX10828593.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828593/SRX10828593.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling