Job ID = 16439693 SRX = SRX11499364 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 9392539 spots for SRR15192718/SRR15192718.sra Written 9392539 spots for SRR15192718/SRR15192718.sra Read 16297572 spots for SRR15192719/SRR15192719.sra Written 16297572 spots for SRR15192719/SRR15192719.sra fastq に変換しました。 bowtie でマッピング中... Your job 16440253 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 01:31:07 25690111 reads; of these: 25690111 (100.00%) were paired; of these: 3824410 (14.89%) aligned concordantly 0 times 16097493 (62.66%) aligned concordantly exactly 1 time 5768208 (22.45%) aligned concordantly >1 times ---- 3824410 pairs aligned concordantly 0 times; of these: 1770110 (46.28%) aligned discordantly 1 time ---- 2054300 pairs aligned 0 times concordantly or discordantly; of these: 4108600 mates make up the pairs; of these: 1887930 (45.95%) aligned 0 times 866452 (21.09%) aligned exactly 1 time 1354218 (32.96%) aligned >1 times 96.33% overall alignment rate Time searching: 01:31:08 Overall time: 01:31:08 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 36 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] 2734148 / 21064876 = 0.1298 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 17:55:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.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 17:55:21: #1 read tag files... INFO @ Tue, 02 Aug 2022 17:55:21: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 17:55:30: 1000000 INFO @ Tue, 02 Aug 2022 17:55:38: 2000000 INFO @ Tue, 02 Aug 2022 17:55:47: 3000000 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 17:55:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.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 17:55:49: #1 read tag files... INFO @ Tue, 02 Aug 2022 17:55:49: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 17:55:56: 4000000 INFO @ Tue, 02 Aug 2022 17:55:58: 1000000 INFO @ Tue, 02 Aug 2022 17:56:06: 5000000 INFO @ Tue, 02 Aug 2022 17:56:07: 2000000 INFO @ Tue, 02 Aug 2022 17:56:15: 6000000 INFO @ Tue, 02 Aug 2022 17:56:16: 3000000 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 17:56:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.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 17:56:19: #1 read tag files... INFO @ Tue, 02 Aug 2022 17:56:19: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 17:56:25: 7000000 INFO @ Tue, 02 Aug 2022 17:56:26: 4000000 INFO @ Tue, 02 Aug 2022 17:56:29: 1000000 INFO @ Tue, 02 Aug 2022 17:56:35: 5000000 INFO @ Tue, 02 Aug 2022 17:56:36: 8000000 INFO @ Tue, 02 Aug 2022 17:56:38: 2000000 INFO @ Tue, 02 Aug 2022 17:56:44: 6000000 INFO @ Tue, 02 Aug 2022 17:56:45: 9000000 INFO @ Tue, 02 Aug 2022 17:56:48: 3000000 INFO @ Tue, 02 Aug 2022 17:56:53: 7000000 INFO @ Tue, 02 Aug 2022 17:56:55: 10000000 INFO @ Tue, 02 Aug 2022 17:56:57: 4000000 INFO @ Tue, 02 Aug 2022 17:57:03: 8000000 INFO @ Tue, 02 Aug 2022 17:57:05: 11000000 INFO @ Tue, 02 Aug 2022 17:57:07: 5000000 INFO @ Tue, 02 Aug 2022 17:57:12: 9000000 INFO @ Tue, 02 Aug 2022 17:57:15: 12000000 INFO @ Tue, 02 Aug 2022 17:57:16: 6000000 INFO @ Tue, 02 Aug 2022 17:57:21: 10000000 INFO @ Tue, 02 Aug 2022 17:57:25: 13000000 INFO @ Tue, 02 Aug 2022 17:57:25: 7000000 INFO @ Tue, 02 Aug 2022 17:57:30: 11000000 INFO @ Tue, 02 Aug 2022 17:57:35: 14000000 INFO @ Tue, 02 Aug 2022 17:57:35: 8000000 INFO @ Tue, 02 Aug 2022 17:57:40: 12000000 INFO @ Tue, 02 Aug 2022 17:57:44: 9000000 INFO @ Tue, 02 Aug 2022 17:57:44: 15000000 INFO @ Tue, 02 Aug 2022 17:57:49: 13000000 INFO @ Tue, 02 Aug 2022 17:57:54: 10000000 INFO @ Tue, 02 Aug 2022 17:57:54: 16000000 INFO @ Tue, 02 Aug 2022 17:57:58: 14000000 INFO @ Tue, 02 Aug 2022 17:58:03: 11000000 INFO @ Tue, 02 Aug 2022 17:58:04: 17000000 INFO @ Tue, 02 Aug 2022 17:58:07: 15000000 INFO @ Tue, 02 Aug 2022 17:58:12: 12000000 INFO @ Tue, 02 Aug 2022 17:58:14: 18000000 INFO @ Tue, 02 Aug 2022 17:58:16: 16000000 INFO @ Tue, 02 Aug 2022 17:58:21: 13000000 INFO @ Tue, 02 Aug 2022 17:58:23: 19000000 INFO @ Tue, 02 Aug 2022 17:58:25: 17000000 INFO @ Tue, 02 Aug 2022 17:58:31: 14000000 INFO @ Tue, 02 Aug 2022 17:58:33: 20000000 INFO @ Tue, 02 Aug 2022 17:58:34: 18000000 INFO @ Tue, 02 Aug 2022 17:58:40: 15000000 INFO @ Tue, 02 Aug 2022 17:58:43: 21000000 INFO @ Tue, 02 Aug 2022 17:58:44: 19000000 INFO @ Tue, 02 Aug 2022 17:58:49: 16000000 INFO @ Tue, 02 Aug 2022 17:58:52: 22000000 INFO @ Tue, 02 Aug 2022 17:58:53: 20000000 INFO @ Tue, 02 Aug 2022 17:58:59: 17000000 INFO @ Tue, 02 Aug 2022 17:59:02: 21000000 INFO @ Tue, 02 Aug 2022 17:59:02: 23000000 INFO @ Tue, 02 Aug 2022 17:59:08: 18000000 INFO @ Tue, 02 Aug 2022 17:59:11: 22000000 INFO @ Tue, 02 Aug 2022 17:59:12: 24000000 INFO @ Tue, 02 Aug 2022 17:59:18: 19000000 INFO @ Tue, 02 Aug 2022 17:59:20: 23000000 INFO @ Tue, 02 Aug 2022 17:59:22: 25000000 INFO @ Tue, 02 Aug 2022 17:59:28: 20000000 INFO @ Tue, 02 Aug 2022 17:59:29: 24000000 INFO @ Tue, 02 Aug 2022 17:59:32: 26000000 INFO @ Tue, 02 Aug 2022 17:59:37: 21000000 INFO @ Tue, 02 Aug 2022 17:59:38: 25000000 INFO @ Tue, 02 Aug 2022 17:59:41: 27000000 INFO @ Tue, 02 Aug 2022 17:59:46: 22000000 INFO @ Tue, 02 Aug 2022 17:59:47: 26000000 INFO @ Tue, 02 Aug 2022 17:59:50: 28000000 INFO @ Tue, 02 Aug 2022 17:59:56: 23000000 INFO @ Tue, 02 Aug 2022 17:59:56: 27000000 INFO @ Tue, 02 Aug 2022 18:00:00: 29000000 INFO @ Tue, 02 Aug 2022 18:00:05: 24000000 INFO @ Tue, 02 Aug 2022 18:00:06: 28000000 INFO @ Tue, 02 Aug 2022 18:00:09: 30000000 INFO @ Tue, 02 Aug 2022 18:00:15: 25000000 INFO @ Tue, 02 Aug 2022 18:00:15: 29000000 INFO @ Tue, 02 Aug 2022 18:00:19: 31000000 INFO @ Tue, 02 Aug 2022 18:00:24: 26000000 INFO @ Tue, 02 Aug 2022 18:00:24: 30000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 18:00:28: 32000000 INFO @ Tue, 02 Aug 2022 18:00:34: 27000000 INFO @ Tue, 02 Aug 2022 18:00:34: 31000000 INFO @ Tue, 02 Aug 2022 18:00:38: 33000000 INFO @ Tue, 02 Aug 2022 18:00:43: 28000000 INFO @ Tue, 02 Aug 2022 18:00:44: 32000000 INFO @ Tue, 02 Aug 2022 18:00:48: 34000000 INFO @ Tue, 02 Aug 2022 18:00:52: 29000000 INFO @ Tue, 02 Aug 2022 18:00:53: 33000000 INFO @ Tue, 02 Aug 2022 18:00:58: 35000000 INFO @ Tue, 02 Aug 2022 18:01:02: 30000000 INFO @ Tue, 02 Aug 2022 18:01:02: 34000000 INFO @ Tue, 02 Aug 2022 18:01:08: 36000000 INFO @ Tue, 02 Aug 2022 18:01:11: 31000000 INFO @ Tue, 02 Aug 2022 18:01:12: 35000000 INFO @ Tue, 02 Aug 2022 18:01:17: 37000000 INFO @ Tue, 02 Aug 2022 18:01:21: 32000000 INFO @ Tue, 02 Aug 2022 18:01:22: 36000000 INFO @ Tue, 02 Aug 2022 18:01:27: 38000000 INFO @ Tue, 02 Aug 2022 18:01:30: 33000000 INFO @ Tue, 02 Aug 2022 18:01:31: 37000000 INFO @ Tue, 02 Aug 2022 18:01:36: 39000000 INFO @ Tue, 02 Aug 2022 18:01:40: 34000000 INFO @ Tue, 02 Aug 2022 18:01:41: 38000000 INFO @ Tue, 02 Aug 2022 18:01:46: 40000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 18:01:50: 35000000 INFO @ Tue, 02 Aug 2022 18:01:51: 39000000 INFO @ Tue, 02 Aug 2022 18:01:55: 41000000 INFO @ Tue, 02 Aug 2022 18:02:00: 36000000 INFO @ Tue, 02 Aug 2022 18:02:01: 40000000 INFO @ Tue, 02 Aug 2022 18:02:05: 42000000 INFO @ Tue, 02 Aug 2022 18:02:10: 37000000 INFO @ Tue, 02 Aug 2022 18:02:11: 41000000 INFO @ Tue, 02 Aug 2022 18:02:14: 43000000 INFO @ Tue, 02 Aug 2022 18:02:20: 38000000 INFO @ Tue, 02 Aug 2022 18:02:21: 42000000 INFO @ Tue, 02 Aug 2022 18:02:24: 44000000 INFO @ Tue, 02 Aug 2022 18:02:24: #1 tag size is determined as 123 bps INFO @ Tue, 02 Aug 2022 18:02:24: #1 tag size = 123 INFO @ Tue, 02 Aug 2022 18:02:24: #1 total tags in treatment: 19251881 INFO @ Tue, 02 Aug 2022 18:02:24: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 18:02:24: #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 18:02:24: #1 tags after filtering in treatment: 17947736 INFO @ Tue, 02 Aug 2022 18:02:24: #1 Redundant rate of treatment: 0.07 INFO @ Tue, 02 Aug 2022 18:02:24: #1 finished! INFO @ Tue, 02 Aug 2022 18:02:24: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 18:02:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 18:02:26: #2 number of paired peaks: 62 WARNING @ Tue, 02 Aug 2022 18:02:26: Too few paired peaks (62) 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 18:02:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.05_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/SRX11499364/SRX11499364.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 18:02:30: 39000000 INFO @ Tue, 02 Aug 2022 18:02:30: 43000000 INFO @ Tue, 02 Aug 2022 18:02:39: 40000000 INFO @ Tue, 02 Aug 2022 18:02:40: 44000000 INFO @ Tue, 02 Aug 2022 18:02:40: #1 tag size is determined as 123 bps INFO @ Tue, 02 Aug 2022 18:02:40: #1 tag size = 123 INFO @ Tue, 02 Aug 2022 18:02:40: #1 total tags in treatment: 19251881 INFO @ Tue, 02 Aug 2022 18:02:40: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 18:02:40: #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 18:02:40: #1 tags after filtering in treatment: 17947736 INFO @ Tue, 02 Aug 2022 18:02:40: #1 Redundant rate of treatment: 0.07 INFO @ Tue, 02 Aug 2022 18:02:40: #1 finished! INFO @ Tue, 02 Aug 2022 18:02:40: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 18:02:40: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 18:02:42: #2 number of paired peaks: 62 WARNING @ Tue, 02 Aug 2022 18:02:42: Too few paired peaks (62) 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 18:02:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.10_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/SRX11499364/SRX11499364.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 18:02:47: 41000000 INFO @ Tue, 02 Aug 2022 18:02:56: 42000000 INFO @ Tue, 02 Aug 2022 18:03:05: 43000000 INFO @ Tue, 02 Aug 2022 18:03:13: 44000000 INFO @ Tue, 02 Aug 2022 18:03:13: #1 tag size is determined as 123 bps INFO @ Tue, 02 Aug 2022 18:03:13: #1 tag size = 123 INFO @ Tue, 02 Aug 2022 18:03:13: #1 total tags in treatment: 19251881 INFO @ Tue, 02 Aug 2022 18:03:13: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 18:03:13: #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 18:03:14: #1 tags after filtering in treatment: 17947736 INFO @ Tue, 02 Aug 2022 18:03:14: #1 Redundant rate of treatment: 0.07 INFO @ Tue, 02 Aug 2022 18:03:14: #1 finished! INFO @ Tue, 02 Aug 2022 18:03:14: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 18:03:14: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 18:03:15: #2 number of paired peaks: 62 WARNING @ Tue, 02 Aug 2022 18:03:15: Too few paired peaks (62) 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 18:03:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.20_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/SRX11499364/SRX11499364.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499364/SRX11499364.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling