Job ID = 6627095 SRX = SRX8347291 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-14T00:50:32 prefetch.2.10.7: 1) Downloading 'SRR11795474'... 2020-07-14T00:50:32 prefetch.2.10.7: Downloading via HTTPS... 2020-07-14T00:56:16 prefetch.2.10.7: HTTPS download succeed 2020-07-14T00:56:16 prefetch.2.10.7: 1) 'SRR11795474' was downloaded successfully 2020-07-14T00:56:16 prefetch.2.10.7: 'SRR11795474' has 0 unresolved dependencies Read 14161010 spots for SRR11795474/SRR11795474.sra Written 14161010 spots for SRR11795474/SRR11795474.sra fastq に変換しました。 bowtie でマッピング中... Your job 6627432 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:46:38 14161010 reads; of these: 14161010 (100.00%) were paired; of these: 1913743 (13.51%) aligned concordantly 0 times 9518780 (67.22%) aligned concordantly exactly 1 time 2728487 (19.27%) aligned concordantly >1 times ---- 1913743 pairs aligned concordantly 0 times; of these: 795520 (41.57%) aligned discordantly 1 time ---- 1118223 pairs aligned 0 times concordantly or discordantly; of these: 2236446 mates make up the pairs; of these: 1426529 (63.79%) aligned 0 times 299351 (13.39%) aligned exactly 1 time 510566 (22.83%) aligned >1 times 94.96% overall alignment rate Time searching: 00:46:38 Overall time: 00:46:38 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 20 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 2369201 / 12978193 = 0.1826 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 10:55:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 14 Jul 2020 10:55:19: #1 read tag files... INFO @ Tue, 14 Jul 2020 10:55:19: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 10:55:28: 1000000 INFO @ Tue, 14 Jul 2020 10:55:36: 2000000 INFO @ Tue, 14 Jul 2020 10:55:44: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 10:55:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 14 Jul 2020 10:55:49: #1 read tag files... INFO @ Tue, 14 Jul 2020 10:55:49: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 10:55:53: 4000000 INFO @ Tue, 14 Jul 2020 10:55:58: 1000000 INFO @ Tue, 14 Jul 2020 10:56:00: 5000000 INFO @ Tue, 14 Jul 2020 10:56:06: 2000000 INFO @ Tue, 14 Jul 2020 10:56:07: 6000000 INFO @ Tue, 14 Jul 2020 10:56:14: 7000000 INFO @ Tue, 14 Jul 2020 10:56:15: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 10:56:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 14 Jul 2020 10:56:19: #1 read tag files... INFO @ Tue, 14 Jul 2020 10:56:19: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 10:56:22: 8000000 INFO @ Tue, 14 Jul 2020 10:56:25: 4000000 INFO @ Tue, 14 Jul 2020 10:56:27: 1000000 INFO @ Tue, 14 Jul 2020 10:56:30: 9000000 INFO @ Tue, 14 Jul 2020 10:56:34: 5000000 INFO @ Tue, 14 Jul 2020 10:56:35: 2000000 INFO @ Tue, 14 Jul 2020 10:56:37: 10000000 INFO @ Tue, 14 Jul 2020 10:56:42: 3000000 INFO @ Tue, 14 Jul 2020 10:56:43: 6000000 INFO @ Tue, 14 Jul 2020 10:56:45: 11000000 INFO @ Tue, 14 Jul 2020 10:56:50: 4000000 INFO @ Tue, 14 Jul 2020 10:56:52: 7000000 INFO @ Tue, 14 Jul 2020 10:56:52: 12000000 INFO @ Tue, 14 Jul 2020 10:56:57: 5000000 INFO @ Tue, 14 Jul 2020 10:56:59: 13000000 INFO @ Tue, 14 Jul 2020 10:57:01: 8000000 INFO @ Tue, 14 Jul 2020 10:57:04: 6000000 INFO @ Tue, 14 Jul 2020 10:57:07: 14000000 INFO @ Tue, 14 Jul 2020 10:57:10: 9000000 INFO @ Tue, 14 Jul 2020 10:57:12: 7000000 INFO @ Tue, 14 Jul 2020 10:57:14: 15000000 INFO @ Tue, 14 Jul 2020 10:57:19: 10000000 INFO @ Tue, 14 Jul 2020 10:57:20: 8000000 INFO @ Tue, 14 Jul 2020 10:57:22: 16000000 INFO @ Tue, 14 Jul 2020 10:57:28: 9000000 INFO @ Tue, 14 Jul 2020 10:57:28: 11000000 INFO @ Tue, 14 Jul 2020 10:57:30: 17000000 INFO @ Tue, 14 Jul 2020 10:57:35: 10000000 INFO @ Tue, 14 Jul 2020 10:57:36: 12000000 INFO @ Tue, 14 Jul 2020 10:57:37: 18000000 INFO @ Tue, 14 Jul 2020 10:57:42: 11000000 INFO @ Tue, 14 Jul 2020 10:57:45: 19000000 INFO @ Tue, 14 Jul 2020 10:57:45: 13000000 INFO @ Tue, 14 Jul 2020 10:57:50: 12000000 INFO @ Tue, 14 Jul 2020 10:57:52: 20000000 INFO @ Tue, 14 Jul 2020 10:57:54: 14000000 INFO @ Tue, 14 Jul 2020 10:57:57: 13000000 INFO @ Tue, 14 Jul 2020 10:58:00: 21000000 INFO @ Tue, 14 Jul 2020 10:58:02: 15000000 INFO @ Tue, 14 Jul 2020 10:58:05: 14000000 INFO @ Tue, 14 Jul 2020 10:58:07: 22000000 INFO @ Tue, 14 Jul 2020 10:58:08: #1 tag size is determined as 150 bps INFO @ Tue, 14 Jul 2020 10:58:08: #1 tag size = 150 INFO @ Tue, 14 Jul 2020 10:58:08: #1 total tags in treatment: 9996658 INFO @ Tue, 14 Jul 2020 10:58:08: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 10:58:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 10:58:08: #1 tags after filtering in treatment: 9682277 INFO @ Tue, 14 Jul 2020 10:58:08: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 14 Jul 2020 10:58:08: #1 finished! INFO @ Tue, 14 Jul 2020 10:58:08: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 10:58:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 10:58:09: #2 number of paired peaks: 47 WARNING @ Tue, 14 Jul 2020 10:58:09: Too few paired peaks (47) 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 @ Tue, 14 Jul 2020 10:58:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.05_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/dm3/SRX8347291/SRX8347291.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 10:58:11: 16000000 INFO @ Tue, 14 Jul 2020 10:58:12: 15000000 INFO @ Tue, 14 Jul 2020 10:58:19: 16000000 INFO @ Tue, 14 Jul 2020 10:58:21: 17000000 INFO @ Tue, 14 Jul 2020 10:58:27: 17000000 INFO @ Tue, 14 Jul 2020 10:58:30: 18000000 INFO @ Tue, 14 Jul 2020 10:58:34: 18000000 INFO @ Tue, 14 Jul 2020 10:58:39: 19000000 INFO @ Tue, 14 Jul 2020 10:58:42: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 10:58:48: 20000000 INFO @ Tue, 14 Jul 2020 10:58:50: 20000000 INFO @ Tue, 14 Jul 2020 10:58:58: 21000000 INFO @ Tue, 14 Jul 2020 10:58:58: 21000000 INFO @ Tue, 14 Jul 2020 10:59:06: 22000000 INFO @ Tue, 14 Jul 2020 10:59:07: #1 tag size is determined as 150 bps INFO @ Tue, 14 Jul 2020 10:59:07: #1 tag size = 150 INFO @ Tue, 14 Jul 2020 10:59:07: #1 total tags in treatment: 9996658 INFO @ Tue, 14 Jul 2020 10:59:07: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 10:59:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 10:59:07: #1 tags after filtering in treatment: 9682277 INFO @ Tue, 14 Jul 2020 10:59:07: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 14 Jul 2020 10:59:07: #1 finished! INFO @ Tue, 14 Jul 2020 10:59:07: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 10:59:07: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 10:59:08: 22000000 INFO @ Tue, 14 Jul 2020 10:59:08: #2 number of paired peaks: 47 WARNING @ Tue, 14 Jul 2020 10:59:08: Too few paired peaks (47) 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 @ Tue, 14 Jul 2020 10:59:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.20_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/dm3/SRX8347291/SRX8347291.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 10:59:09: #1 tag size is determined as 150 bps INFO @ Tue, 14 Jul 2020 10:59:09: #1 tag size = 150 INFO @ Tue, 14 Jul 2020 10:59:09: #1 total tags in treatment: 9996658 INFO @ Tue, 14 Jul 2020 10:59:09: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 10:59:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 10:59:10: #1 tags after filtering in treatment: 9682277 INFO @ Tue, 14 Jul 2020 10:59:10: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 14 Jul 2020 10:59:10: #1 finished! INFO @ Tue, 14 Jul 2020 10:59:10: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 10:59:10: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 10:59:10: #2 number of paired peaks: 47 WARNING @ Tue, 14 Jul 2020 10:59:10: Too few paired peaks (47) 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 @ Tue, 14 Jul 2020 10:59:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.10_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/dm3/SRX8347291/SRX8347291.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8347291/SRX8347291.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。