Job ID = 16439694 SRX = SRX11499365 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 18771512 spots for SRR15192720/SRR15192720.sra Written 18771512 spots for SRR15192720/SRR15192720.sra Read 13042634 spots for SRR15192721/SRR15192721.sra Written 13042634 spots for SRR15192721/SRR15192721.sra fastq に変換しました。 bowtie でマッピング中... Your job 16441449 ("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: 02:56:30 31814146 reads; of these: 31814146 (100.00%) were paired; of these: 4454785 (14.00%) aligned concordantly 0 times 20622370 (64.82%) aligned concordantly exactly 1 time 6736991 (21.18%) aligned concordantly >1 times ---- 4454785 pairs aligned concordantly 0 times; of these: 2011139 (45.15%) aligned discordantly 1 time ---- 2443646 pairs aligned 0 times concordantly or discordantly; of these: 4887292 mates make up the pairs; of these: 2358756 (48.26%) aligned 0 times 1058885 (21.67%) aligned exactly 1 time 1469651 (30.07%) aligned >1 times 96.29% overall alignment rate Time searching: 02:56:31 Overall time: 02:56:31 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 48 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] 5845179 / 25710086 = 0.2273 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 19:41:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.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 19:41:45: #1 read tag files... INFO @ Tue, 02 Aug 2022 19:41:45: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 19:41:58: 1000000 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 19:42:11: 2000000 INFO @ Tue, 02 Aug 2022 19:42:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.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 19:42:12: #1 read tag files... INFO @ Tue, 02 Aug 2022 19:42:12: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 19:42:23: 3000000 INFO @ Tue, 02 Aug 2022 19:42:26: 1000000 INFO @ Tue, 02 Aug 2022 19:42:36: 4000000 INFO @ Tue, 02 Aug 2022 19:42:39: 2000000 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 19:42:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.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 19:42:42: #1 read tag files... INFO @ Tue, 02 Aug 2022 19:42:42: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 19:42:49: 5000000 INFO @ Tue, 02 Aug 2022 19:42:52: 3000000 INFO @ Tue, 02 Aug 2022 19:42:56: 1000000 INFO @ Tue, 02 Aug 2022 19:43:02: 6000000 INFO @ Tue, 02 Aug 2022 19:43:05: 4000000 INFO @ Tue, 02 Aug 2022 19:43:10: 2000000 INFO @ Tue, 02 Aug 2022 19:43:15: 7000000 INFO @ Tue, 02 Aug 2022 19:43:18: 5000000 INFO @ Tue, 02 Aug 2022 19:43:24: 3000000 INFO @ Tue, 02 Aug 2022 19:43:28: 8000000 INFO @ Tue, 02 Aug 2022 19:43:31: 6000000 INFO @ Tue, 02 Aug 2022 19:43:37: 4000000 INFO @ Tue, 02 Aug 2022 19:43:41: 9000000 INFO @ Tue, 02 Aug 2022 19:43:44: 7000000 INFO @ Tue, 02 Aug 2022 19:43:50: 5000000 INFO @ Tue, 02 Aug 2022 19:43:55: 10000000 INFO @ Tue, 02 Aug 2022 19:43:56: 8000000 INFO @ Tue, 02 Aug 2022 19:44:03: 6000000 INFO @ Tue, 02 Aug 2022 19:44:07: 9000000 INFO @ Tue, 02 Aug 2022 19:44:09: 11000000 INFO @ Tue, 02 Aug 2022 19:44:17: 7000000 INFO @ Tue, 02 Aug 2022 19:44:19: 10000000 INFO @ Tue, 02 Aug 2022 19:44:22: 12000000 INFO @ Tue, 02 Aug 2022 19:44:29: 8000000 INFO @ Tue, 02 Aug 2022 19:44:31: 11000000 INFO @ Tue, 02 Aug 2022 19:44:35: 13000000 INFO @ Tue, 02 Aug 2022 19:44:41: 9000000 INFO @ Tue, 02 Aug 2022 19:44:45: 12000000 INFO @ Tue, 02 Aug 2022 19:44:48: 14000000 INFO @ Tue, 02 Aug 2022 19:44:54: 10000000 INFO @ Tue, 02 Aug 2022 19:44:59: 13000000 INFO @ Tue, 02 Aug 2022 19:45:01: 15000000 INFO @ Tue, 02 Aug 2022 19:45:07: 11000000 INFO @ Tue, 02 Aug 2022 19:45:13: 14000000 INFO @ Tue, 02 Aug 2022 19:45:15: 16000000 INFO @ Tue, 02 Aug 2022 19:45:20: 12000000 INFO @ Tue, 02 Aug 2022 19:45:27: 15000000 INFO @ Tue, 02 Aug 2022 19:45:28: 17000000 INFO @ Tue, 02 Aug 2022 19:45:33: 13000000 INFO @ Tue, 02 Aug 2022 19:45:40: 16000000 INFO @ Tue, 02 Aug 2022 19:45:41: 18000000 INFO @ Tue, 02 Aug 2022 19:45:47: 14000000 INFO @ Tue, 02 Aug 2022 19:45:54: 17000000 INFO @ Tue, 02 Aug 2022 19:45:55: 19000000 INFO @ Tue, 02 Aug 2022 19:46:01: 15000000 INFO @ Tue, 02 Aug 2022 19:46:09: 18000000 INFO @ Tue, 02 Aug 2022 19:46:10: 20000000 INFO @ Tue, 02 Aug 2022 19:46:15: 16000000 INFO @ Tue, 02 Aug 2022 19:46:23: 19000000 INFO @ Tue, 02 Aug 2022 19:46:25: 21000000 INFO @ Tue, 02 Aug 2022 19:46:29: 17000000 INFO @ Tue, 02 Aug 2022 19:46:38: 20000000 INFO @ Tue, 02 Aug 2022 19:46:39: 22000000 INFO @ Tue, 02 Aug 2022 19:46:42: 18000000 INFO @ Tue, 02 Aug 2022 19:46:52: 21000000 INFO @ Tue, 02 Aug 2022 19:46:54: 23000000 INFO @ Tue, 02 Aug 2022 19:46:56: 19000000 INFO @ Tue, 02 Aug 2022 19:47:06: 22000000 INFO @ Tue, 02 Aug 2022 19:47:06: 24000000 INFO @ Tue, 02 Aug 2022 19:47:10: 20000000 INFO @ Tue, 02 Aug 2022 19:47:19: 25000000 INFO @ Tue, 02 Aug 2022 19:47:19: 23000000 INFO @ Tue, 02 Aug 2022 19:47:24: 21000000 INFO @ Tue, 02 Aug 2022 19:47:31: 26000000 INFO @ Tue, 02 Aug 2022 19:47:33: 24000000 INFO @ Tue, 02 Aug 2022 19:47:38: 22000000 INFO @ Tue, 02 Aug 2022 19:47:44: 27000000 INFO @ Tue, 02 Aug 2022 19:47:46: 25000000 INFO @ Tue, 02 Aug 2022 19:47:52: 23000000 INFO @ Tue, 02 Aug 2022 19:47:57: 28000000 INFO @ Tue, 02 Aug 2022 19:48:00: 26000000 INFO @ Tue, 02 Aug 2022 19:48:06: 24000000 INFO @ Tue, 02 Aug 2022 19:48:12: 29000000 INFO @ Tue, 02 Aug 2022 19:48:14: 27000000 INFO @ Tue, 02 Aug 2022 19:48:20: 25000000 INFO @ Tue, 02 Aug 2022 19:48:25: 30000000 INFO @ Tue, 02 Aug 2022 19:48:28: 28000000 INFO @ Tue, 02 Aug 2022 19:48:34: 26000000 INFO @ Tue, 02 Aug 2022 19:48:37: 31000000 INFO @ Tue, 02 Aug 2022 19:48:42: 29000000 INFO @ Tue, 02 Aug 2022 19:48:48: 27000000 INFO @ Tue, 02 Aug 2022 19:48:50: 32000000 INFO @ Tue, 02 Aug 2022 19:48:55: 30000000 INFO @ Tue, 02 Aug 2022 19:49:02: 28000000 INFO @ Tue, 02 Aug 2022 19:49:03: 33000000 INFO @ Tue, 02 Aug 2022 19:49:08: 31000000 INFO @ Tue, 02 Aug 2022 19:49:15: 34000000 INFO @ Tue, 02 Aug 2022 19:49:17: 29000000 INFO @ Tue, 02 Aug 2022 19:49:21: 32000000 INFO @ Tue, 02 Aug 2022 19:49:27: 35000000 INFO @ Tue, 02 Aug 2022 19:49:31: 30000000 INFO @ Tue, 02 Aug 2022 19:49:34: 33000000 INFO @ Tue, 02 Aug 2022 19:49:39: 36000000 INFO @ Tue, 02 Aug 2022 19:49:45: 31000000 INFO @ Tue, 02 Aug 2022 19:49:47: 34000000 INFO @ Tue, 02 Aug 2022 19:49:52: 37000000 INFO @ Tue, 02 Aug 2022 19:49:58: 32000000 INFO @ Tue, 02 Aug 2022 19:49:59: 35000000 INFO @ Tue, 02 Aug 2022 19:50:05: 38000000 INFO @ Tue, 02 Aug 2022 19:50:11: 36000000 INFO @ Tue, 02 Aug 2022 19:50:12: 33000000 INFO @ Tue, 02 Aug 2022 19:50:18: 39000000 INFO @ Tue, 02 Aug 2022 19:50:24: 37000000 INFO @ Tue, 02 Aug 2022 19:50:26: 34000000 INFO @ Tue, 02 Aug 2022 19:50:32: 40000000 INFO @ Tue, 02 Aug 2022 19:50:37: 38000000 INFO @ Tue, 02 Aug 2022 19:50:40: 35000000 INFO @ Tue, 02 Aug 2022 19:50:46: 41000000 INFO @ Tue, 02 Aug 2022 19:50:50: 39000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 19:50:53: 36000000 INFO @ Tue, 02 Aug 2022 19:51:01: 42000000 INFO @ Tue, 02 Aug 2022 19:51:03: 40000000 INFO @ Tue, 02 Aug 2022 19:51:06: 37000000 INFO @ Tue, 02 Aug 2022 19:51:14: 43000000 INFO @ Tue, 02 Aug 2022 19:51:17: 41000000 INFO @ Tue, 02 Aug 2022 19:51:20: 38000000 INFO @ Tue, 02 Aug 2022 19:51:29: 44000000 INFO @ Tue, 02 Aug 2022 19:51:31: 42000000 INFO @ Tue, 02 Aug 2022 19:51:32: 39000000 INFO @ Tue, 02 Aug 2022 19:51:43: 40000000 INFO @ Tue, 02 Aug 2022 19:51:43: 43000000 INFO @ Tue, 02 Aug 2022 19:51:43: 45000000 INFO @ Tue, 02 Aug 2022 19:51:54: 41000000 INFO @ Tue, 02 Aug 2022 19:51:57: 44000000 INFO @ Tue, 02 Aug 2022 19:51:57: 46000000 INFO @ Tue, 02 Aug 2022 19:52:04: 42000000 INFO @ Tue, 02 Aug 2022 19:52:10: 45000000 INFO @ Tue, 02 Aug 2022 19:52:11: 47000000 INFO @ Tue, 02 Aug 2022 19:52:15: 43000000 INFO @ Tue, 02 Aug 2022 19:52:22: 46000000 INFO @ Tue, 02 Aug 2022 19:52:25: 48000000 INFO @ Tue, 02 Aug 2022 19:52:26: 44000000 INFO @ Tue, 02 Aug 2022 19:52:35: 47000000 INFO @ Tue, 02 Aug 2022 19:52:37: 45000000 INFO @ Tue, 02 Aug 2022 19:52:38: 49000000 INFO @ Tue, 02 Aug 2022 19:52:47: #1 tag size is determined as 136 bps INFO @ Tue, 02 Aug 2022 19:52:47: #1 tag size = 136 INFO @ Tue, 02 Aug 2022 19:52:47: #1 total tags in treatment: 21762421 INFO @ Tue, 02 Aug 2022 19:52:47: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 19:52:47: #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 19:52:47: 46000000 INFO @ Tue, 02 Aug 2022 19:52:47: #1 tags after filtering in treatment: 19854296 INFO @ Tue, 02 Aug 2022 19:52:47: #1 Redundant rate of treatment: 0.09 INFO @ Tue, 02 Aug 2022 19:52:47: #1 finished! INFO @ Tue, 02 Aug 2022 19:52:47: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 19:52:47: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 19:52:48: 48000000 INFO @ Tue, 02 Aug 2022 19:52:49: #2 number of paired peaks: 46 WARNING @ Tue, 02 Aug 2022 19:52:49: Too few paired peaks (46) 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 19:52:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.05_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/dm3/SRX11499365/SRX11499365.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 19:52:57: 47000000 INFO @ Tue, 02 Aug 2022 19:53:00: 49000000 INFO @ Tue, 02 Aug 2022 19:53:08: 48000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 19:53:08: #1 tag size is determined as 136 bps INFO @ Tue, 02 Aug 2022 19:53:08: #1 tag size = 136 INFO @ Tue, 02 Aug 2022 19:53:08: #1 total tags in treatment: 21762421 INFO @ Tue, 02 Aug 2022 19:53:08: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 19:53:08: #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 19:53:09: #1 tags after filtering in treatment: 19854296 INFO @ Tue, 02 Aug 2022 19:53:09: #1 Redundant rate of treatment: 0.09 INFO @ Tue, 02 Aug 2022 19:53:09: #1 finished! INFO @ Tue, 02 Aug 2022 19:53:09: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 19:53:09: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 19:53:11: #2 number of paired peaks: 46 WARNING @ Tue, 02 Aug 2022 19:53:11: Too few paired peaks (46) 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 19:53:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.10_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/dm3/SRX11499365/SRX11499365.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 19:53:19: 49000000 INFO @ Tue, 02 Aug 2022 19:53:26: #1 tag size is determined as 136 bps INFO @ Tue, 02 Aug 2022 19:53:26: #1 tag size = 136 INFO @ Tue, 02 Aug 2022 19:53:26: #1 total tags in treatment: 21762421 INFO @ Tue, 02 Aug 2022 19:53:26: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 19:53:26: #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 19:53:27: #1 tags after filtering in treatment: 19854296 INFO @ Tue, 02 Aug 2022 19:53:27: #1 Redundant rate of treatment: 0.09 INFO @ Tue, 02 Aug 2022 19:53:27: #1 finished! INFO @ Tue, 02 Aug 2022 19:53:27: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 19:53:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 19:53:28: #2 number of paired peaks: 46 WARNING @ Tue, 02 Aug 2022 19:53:28: Too few paired peaks (46) 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 19:53:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.20_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/dm3/SRX11499365/SRX11499365.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499365/SRX11499365.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling