Job ID = 16439350 SRX = SRX14232179 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 18799221 spots for SRR18080639/SRR18080639.sra Written 18799221 spots for SRR18080639/SRR18080639.sra fastq に変換しました。 bowtie でマッピング中... Your job 16439826 ("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: 01:12:06 18799221 reads; of these: 18799221 (100.00%) were paired; of these: 5751760 (30.60%) aligned concordantly 0 times 10439279 (55.53%) aligned concordantly exactly 1 time 2608182 (13.87%) aligned concordantly >1 times ---- 5751760 pairs aligned concordantly 0 times; of these: 2230848 (38.79%) aligned discordantly 1 time ---- 3520912 pairs aligned 0 times concordantly or discordantly; of these: 7041824 mates make up the pairs; of these: 5460765 (77.55%) aligned 0 times 533749 (7.58%) aligned exactly 1 time 1047310 (14.87%) aligned >1 times 85.48% overall alignment rate Time searching: 01:12:06 Overall time: 01:12:06 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 24 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] 2795637 / 15025310 = 0.1861 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:29:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.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, 02 Aug 2022 16:29:14: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:29:14: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:29:25: 1000000 INFO @ Tue, 02 Aug 2022 16:29:35: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:29:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.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, 02 Aug 2022 16:29:43: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:29:43: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:29:45: 3000000 INFO @ Tue, 02 Aug 2022 16:29:57: 4000000 INFO @ Tue, 02 Aug 2022 16:29:59: 1000000 INFO @ Tue, 02 Aug 2022 16:30:08: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:30:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.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, 02 Aug 2022 16:30:13: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:30:13: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:30:15: 2000000 INFO @ Tue, 02 Aug 2022 16:30:19: 6000000 INFO @ Tue, 02 Aug 2022 16:30:27: 1000000 INFO @ Tue, 02 Aug 2022 16:30:30: 7000000 INFO @ Tue, 02 Aug 2022 16:30:31: 3000000 INFO @ Tue, 02 Aug 2022 16:30:41: 8000000 INFO @ Tue, 02 Aug 2022 16:30:42: 2000000 INFO @ Tue, 02 Aug 2022 16:30:47: 4000000 INFO @ Tue, 02 Aug 2022 16:30:53: 9000000 INFO @ Tue, 02 Aug 2022 16:30:56: 3000000 INFO @ Tue, 02 Aug 2022 16:31:03: 5000000 INFO @ Tue, 02 Aug 2022 16:31:04: 10000000 INFO @ Tue, 02 Aug 2022 16:31:10: 4000000 INFO @ Tue, 02 Aug 2022 16:31:15: 11000000 INFO @ Tue, 02 Aug 2022 16:31:18: 6000000 INFO @ Tue, 02 Aug 2022 16:31:24: 5000000 INFO @ Tue, 02 Aug 2022 16:31:27: 12000000 INFO @ Tue, 02 Aug 2022 16:31:34: 7000000 INFO @ Tue, 02 Aug 2022 16:31:38: 13000000 INFO @ Tue, 02 Aug 2022 16:31:38: 6000000 INFO @ Tue, 02 Aug 2022 16:31:49: 14000000 INFO @ Tue, 02 Aug 2022 16:31:50: 8000000 INFO @ Tue, 02 Aug 2022 16:31:53: 7000000 INFO @ Tue, 02 Aug 2022 16:32:00: 15000000 INFO @ Tue, 02 Aug 2022 16:32:05: 9000000 INFO @ Tue, 02 Aug 2022 16:32:07: 8000000 INFO @ Tue, 02 Aug 2022 16:32:11: 16000000 INFO @ Tue, 02 Aug 2022 16:32:21: 9000000 INFO @ Tue, 02 Aug 2022 16:32:21: 10000000 INFO @ Tue, 02 Aug 2022 16:32:22: 17000000 INFO @ Tue, 02 Aug 2022 16:32:33: 18000000 INFO @ Tue, 02 Aug 2022 16:32:35: 10000000 INFO @ Tue, 02 Aug 2022 16:32:36: 11000000 INFO @ Tue, 02 Aug 2022 16:32:44: 19000000 INFO @ Tue, 02 Aug 2022 16:32:50: 11000000 INFO @ Tue, 02 Aug 2022 16:32:52: 12000000 INFO @ Tue, 02 Aug 2022 16:32:55: 20000000 INFO @ Tue, 02 Aug 2022 16:33:04: 12000000 INFO @ Tue, 02 Aug 2022 16:33:07: 21000000 INFO @ Tue, 02 Aug 2022 16:33:07: 13000000 INFO @ Tue, 02 Aug 2022 16:33:18: 13000000 INFO @ Tue, 02 Aug 2022 16:33:18: 22000000 INFO @ Tue, 02 Aug 2022 16:33:23: 14000000 INFO @ Tue, 02 Aug 2022 16:33:29: 23000000 INFO @ Tue, 02 Aug 2022 16:33:32: 14000000 INFO @ Tue, 02 Aug 2022 16:33:39: 15000000 INFO @ Tue, 02 Aug 2022 16:33:40: 24000000 INFO @ Tue, 02 Aug 2022 16:33:47: 15000000 INFO @ Tue, 02 Aug 2022 16:33:51: 25000000 INFO @ Tue, 02 Aug 2022 16:33:55: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:34:01: 16000000 INFO @ Tue, 02 Aug 2022 16:34:02: 26000000 INFO @ Tue, 02 Aug 2022 16:34:07: #1 tag size is determined as 150 bps INFO @ Tue, 02 Aug 2022 16:34:07: #1 tag size = 150 INFO @ Tue, 02 Aug 2022 16:34:07: #1 total tags in treatment: 10625735 INFO @ Tue, 02 Aug 2022 16:34:07: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:34:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 16:34:08: #1 tags after filtering in treatment: 10033459 INFO @ Tue, 02 Aug 2022 16:34:08: #1 Redundant rate of treatment: 0.06 INFO @ Tue, 02 Aug 2022 16:34:08: #1 finished! INFO @ Tue, 02 Aug 2022 16:34:08: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:34:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:34:08: #2 number of paired peaks: 82 WARNING @ Tue, 02 Aug 2022 16:34:08: Too few paired peaks (82) 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, 02 Aug 2022 16:34:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.05_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/SRX14232179/SRX14232179.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:34:11: 17000000 INFO @ Tue, 02 Aug 2022 16:34:16: 17000000 INFO @ Tue, 02 Aug 2022 16:34:28: 18000000 INFO @ Tue, 02 Aug 2022 16:34:32: 18000000 INFO @ Tue, 02 Aug 2022 16:34:45: 19000000 INFO @ Tue, 02 Aug 2022 16:34:46: 19000000 INFO @ Tue, 02 Aug 2022 16:35:01: 20000000 INFO @ Tue, 02 Aug 2022 16:35:02: 20000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 16:35:17: 21000000 INFO @ Tue, 02 Aug 2022 16:35:20: 21000000 INFO @ Tue, 02 Aug 2022 16:35:33: 22000000 INFO @ Tue, 02 Aug 2022 16:35:37: 22000000 INFO @ Tue, 02 Aug 2022 16:35:49: 23000000 INFO @ Tue, 02 Aug 2022 16:35:55: 23000000 INFO @ Tue, 02 Aug 2022 16:36:05: 24000000 INFO @ Tue, 02 Aug 2022 16:36:12: 24000000 INFO @ Tue, 02 Aug 2022 16:36:21: 25000000 INFO @ Tue, 02 Aug 2022 16:36:30: 25000000 INFO @ Tue, 02 Aug 2022 16:36:37: 26000000 INFO @ Tue, 02 Aug 2022 16:36:46: #1 tag size is determined as 150 bps INFO @ Tue, 02 Aug 2022 16:36:46: #1 tag size = 150 INFO @ Tue, 02 Aug 2022 16:36:46: #1 total tags in treatment: 10625735 INFO @ Tue, 02 Aug 2022 16:36:46: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:36:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 16:36:46: #1 tags after filtering in treatment: 10033459 INFO @ Tue, 02 Aug 2022 16:36:46: #1 Redundant rate of treatment: 0.06 INFO @ Tue, 02 Aug 2022 16:36:46: #1 finished! INFO @ Tue, 02 Aug 2022 16:36:46: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:36:46: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:36:47: #2 number of paired peaks: 82 WARNING @ Tue, 02 Aug 2022 16:36:47: Too few paired peaks (82) 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, 02 Aug 2022 16:36:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.20_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/SRX14232179/SRX14232179.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:36:48: 26000000 INFO @ Tue, 02 Aug 2022 16:36:57: #1 tag size is determined as 150 bps INFO @ Tue, 02 Aug 2022 16:36:57: #1 tag size = 150 INFO @ Tue, 02 Aug 2022 16:36:57: #1 total tags in treatment: 10625735 INFO @ Tue, 02 Aug 2022 16:36:57: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:36:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 16:36:57: #1 tags after filtering in treatment: 10033459 INFO @ Tue, 02 Aug 2022 16:36:57: #1 Redundant rate of treatment: 0.06 INFO @ Tue, 02 Aug 2022 16:36:57: #1 finished! INFO @ Tue, 02 Aug 2022 16:36:57: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:36:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:36:58: #2 number of paired peaks: 82 WARNING @ Tue, 02 Aug 2022 16:36:58: Too few paired peaks (82) 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, 02 Aug 2022 16:36:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.10_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/dm3/SRX14232179/SRX14232179.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX14232179/SRX14232179.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling