Job ID = 16439836 SRX = SRX15414666 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-08-02T07:17:06 prefetch.2.10.7: 1) Downloading 'SRR19355934'... 2022-08-02T07:17:06 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T07:21:12 prefetch.2.10.7: HTTPS download succeed 2022-08-02T07:21:12 prefetch.2.10.7: 1) 'SRR19355934' was downloaded successfully 2022-08-02T07:21:12 prefetch.2.10.7: 'SRR19355934' has 0 unresolved dependencies Read 36322161 spots for SRR19355934/SRR19355934.sra Written 36322161 spots for SRR19355934/SRR19355934.sra fastq に変換しました。 bowtie でマッピング中... Your job 16440962 ("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: 01:43:52 36322161 reads; of these: 36322161 (100.00%) were paired; of these: 19524905 (53.75%) aligned concordantly 0 times 13578501 (37.38%) aligned concordantly exactly 1 time 3218755 (8.86%) aligned concordantly >1 times ---- 19524905 pairs aligned concordantly 0 times; of these: 808983 (4.14%) aligned discordantly 1 time ---- 18715922 pairs aligned 0 times concordantly or discordantly; of these: 37431844 mates make up the pairs; of these: 36496997 (97.50%) aligned 0 times 415647 (1.11%) aligned exactly 1 time 519200 (1.39%) aligned >1 times 49.76% overall alignment rate Time searching: 01:43:53 Overall time: 01:43:53 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 28 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] 2542608 / 17579007 = 0.1446 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 18:33:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.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 18:33:07: #1 read tag files... INFO @ Tue, 02 Aug 2022 18:33:07: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 18:33:21: 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 18:33:34: 2000000 INFO @ Tue, 02 Aug 2022 18:33:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.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 18:33:35: #1 read tag files... INFO @ Tue, 02 Aug 2022 18:33:35: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 18:33:47: 3000000 INFO @ Tue, 02 Aug 2022 18:33:48: 1000000 INFO @ Tue, 02 Aug 2022 18:34:01: 4000000 INFO @ Tue, 02 Aug 2022 18:34:02: 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 18:34:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.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 18:34:05: #1 read tag files... INFO @ Tue, 02 Aug 2022 18:34:05: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 18:34:14: 5000000 INFO @ Tue, 02 Aug 2022 18:34:16: 3000000 INFO @ Tue, 02 Aug 2022 18:34:21: 1000000 INFO @ Tue, 02 Aug 2022 18:34:29: 6000000 INFO @ Tue, 02 Aug 2022 18:34:30: 4000000 INFO @ Tue, 02 Aug 2022 18:34:35: 2000000 INFO @ Tue, 02 Aug 2022 18:34:44: 7000000 INFO @ Tue, 02 Aug 2022 18:34:45: 5000000 INFO @ Tue, 02 Aug 2022 18:34:50: 3000000 INFO @ Tue, 02 Aug 2022 18:34:59: 8000000 INFO @ Tue, 02 Aug 2022 18:34:59: 6000000 INFO @ Tue, 02 Aug 2022 18:35:04: 4000000 INFO @ Tue, 02 Aug 2022 18:35:14: 9000000 INFO @ Tue, 02 Aug 2022 18:35:14: 7000000 INFO @ Tue, 02 Aug 2022 18:35:18: 5000000 INFO @ Tue, 02 Aug 2022 18:35:28: 10000000 INFO @ Tue, 02 Aug 2022 18:35:28: 8000000 INFO @ Tue, 02 Aug 2022 18:35:32: 6000000 INFO @ Tue, 02 Aug 2022 18:35:42: 11000000 INFO @ Tue, 02 Aug 2022 18:35:42: 9000000 INFO @ Tue, 02 Aug 2022 18:35:46: 7000000 INFO @ Tue, 02 Aug 2022 18:35:56: 12000000 INFO @ Tue, 02 Aug 2022 18:35:56: 10000000 INFO @ Tue, 02 Aug 2022 18:36:00: 8000000 INFO @ Tue, 02 Aug 2022 18:36:09: 11000000 INFO @ Tue, 02 Aug 2022 18:36:10: 13000000 INFO @ Tue, 02 Aug 2022 18:36:14: 9000000 INFO @ Tue, 02 Aug 2022 18:36:23: 12000000 INFO @ Tue, 02 Aug 2022 18:36:24: 14000000 INFO @ Tue, 02 Aug 2022 18:36:28: 10000000 INFO @ Tue, 02 Aug 2022 18:36:36: 13000000 INFO @ Tue, 02 Aug 2022 18:36:38: 15000000 INFO @ Tue, 02 Aug 2022 18:36:42: 11000000 INFO @ Tue, 02 Aug 2022 18:36:50: 14000000 INFO @ Tue, 02 Aug 2022 18:36:53: 16000000 INFO @ Tue, 02 Aug 2022 18:36:56: 12000000 INFO @ Tue, 02 Aug 2022 18:37:04: 15000000 INFO @ Tue, 02 Aug 2022 18:37:07: 17000000 INFO @ Tue, 02 Aug 2022 18:37:10: 13000000 INFO @ Tue, 02 Aug 2022 18:37:18: 16000000 INFO @ Tue, 02 Aug 2022 18:37:21: 18000000 INFO @ Tue, 02 Aug 2022 18:37:25: 14000000 INFO @ Tue, 02 Aug 2022 18:37:32: 17000000 INFO @ Tue, 02 Aug 2022 18:37:36: 19000000 INFO @ Tue, 02 Aug 2022 18:37:39: 15000000 INFO @ Tue, 02 Aug 2022 18:37:45: 18000000 INFO @ Tue, 02 Aug 2022 18:37:50: 20000000 INFO @ Tue, 02 Aug 2022 18:37:55: 16000000 INFO @ Tue, 02 Aug 2022 18:37:59: 19000000 INFO @ Tue, 02 Aug 2022 18:38:05: 21000000 INFO @ Tue, 02 Aug 2022 18:38:09: 17000000 INFO @ Tue, 02 Aug 2022 18:38:13: 20000000 INFO @ Tue, 02 Aug 2022 18:38:20: 22000000 INFO @ Tue, 02 Aug 2022 18:38:23: 18000000 INFO @ Tue, 02 Aug 2022 18:38:27: 21000000 INFO @ Tue, 02 Aug 2022 18:38:34: 23000000 INFO @ Tue, 02 Aug 2022 18:38:37: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 18:38:41: 22000000 INFO @ Tue, 02 Aug 2022 18:38:50: 24000000 INFO @ Tue, 02 Aug 2022 18:38:51: 20000000 INFO @ Tue, 02 Aug 2022 18:38:55: 23000000 INFO @ Tue, 02 Aug 2022 18:39:04: 25000000 INFO @ Tue, 02 Aug 2022 18:39:05: 21000000 INFO @ Tue, 02 Aug 2022 18:39:07: 24000000 INFO @ Tue, 02 Aug 2022 18:39:18: 26000000 INFO @ Tue, 02 Aug 2022 18:39:19: 22000000 INFO @ Tue, 02 Aug 2022 18:39:22: 25000000 INFO @ Tue, 02 Aug 2022 18:39:31: 27000000 INFO @ Tue, 02 Aug 2022 18:39:33: 23000000 INFO @ Tue, 02 Aug 2022 18:39:36: 26000000 INFO @ Tue, 02 Aug 2022 18:39:45: 28000000 INFO @ Tue, 02 Aug 2022 18:39:49: 24000000 INFO @ Tue, 02 Aug 2022 18:39:51: 27000000 INFO @ Tue, 02 Aug 2022 18:39:59: 29000000 INFO @ Tue, 02 Aug 2022 18:40:03: 25000000 INFO @ Tue, 02 Aug 2022 18:40:06: 28000000 INFO @ Tue, 02 Aug 2022 18:40:14: 30000000 INFO @ Tue, 02 Aug 2022 18:40:18: 26000000 INFO @ Tue, 02 Aug 2022 18:40:21: 29000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 18:40:27: 31000000 INFO @ Tue, 02 Aug 2022 18:40:28: #1 tag size is determined as 150 bps INFO @ Tue, 02 Aug 2022 18:40:28: #1 tag size = 150 INFO @ Tue, 02 Aug 2022 18:40:28: #1 total tags in treatment: 14364026 INFO @ Tue, 02 Aug 2022 18:40:28: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 18:40:28: #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 18:40:29: #1 tags after filtering in treatment: 13829261 INFO @ Tue, 02 Aug 2022 18:40:29: #1 Redundant rate of treatment: 0.04 INFO @ Tue, 02 Aug 2022 18:40:29: #1 finished! INFO @ Tue, 02 Aug 2022 18:40:29: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 18:40:29: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 18:40:30: #2 number of paired peaks: 37 WARNING @ Tue, 02 Aug 2022 18:40:30: Too few paired peaks (37) 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 18:40:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.05_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/SRX15414666/SRX15414666.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 18:40:32: 27000000 INFO @ Tue, 02 Aug 2022 18:40:35: 30000000 INFO @ Tue, 02 Aug 2022 18:40:46: 28000000 INFO @ Tue, 02 Aug 2022 18:40:49: 31000000 INFO @ Tue, 02 Aug 2022 18:40:50: #1 tag size is determined as 150 bps INFO @ Tue, 02 Aug 2022 18:40:50: #1 tag size = 150 INFO @ Tue, 02 Aug 2022 18:40:50: #1 total tags in treatment: 14364026 INFO @ Tue, 02 Aug 2022 18:40:50: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 18:40:50: #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 18:40:50: #1 tags after filtering in treatment: 13829261 INFO @ Tue, 02 Aug 2022 18:40:50: #1 Redundant rate of treatment: 0.04 INFO @ Tue, 02 Aug 2022 18:40:50: #1 finished! INFO @ Tue, 02 Aug 2022 18:40:50: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 18:40:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 18:40:52: #2 number of paired peaks: 37 WARNING @ Tue, 02 Aug 2022 18:40:52: Too few paired peaks (37) 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 18:40:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.10_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/SRX15414666/SRX15414666.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 18:40:59: 29000000 INFO @ Tue, 02 Aug 2022 18:41:11: 30000000 INFO @ Tue, 02 Aug 2022 18:41:24: 31000000 INFO @ Tue, 02 Aug 2022 18:41:25: #1 tag size is determined as 150 bps INFO @ Tue, 02 Aug 2022 18:41:25: #1 tag size = 150 INFO @ Tue, 02 Aug 2022 18:41:25: #1 total tags in treatment: 14364026 INFO @ Tue, 02 Aug 2022 18:41:25: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 18:41:25: #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 18:41:25: #1 tags after filtering in treatment: 13829261 INFO @ Tue, 02 Aug 2022 18:41:25: #1 Redundant rate of treatment: 0.04 INFO @ Tue, 02 Aug 2022 18:41:25: #1 finished! INFO @ Tue, 02 Aug 2022 18:41:25: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 18:41:25: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 18:41:26: #2 number of paired peaks: 37 WARNING @ Tue, 02 Aug 2022 18:41:26: Too few paired peaks (37) 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 18:41:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.20_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/SRX15414666/SRX15414666.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX15414666/SRX15414666.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling