diff --git a/.gitignore b/.gitignore
index a7f4139..8215a70 100644
--- a/.gitignore
+++ b/.gitignore
@@ -13,7 +13,6 @@
98.results/*
99.scripts/bucky/
99.scripts/phyparts/
-.pueue.yml
run.status
!*/_description.md
-tmp/
\ No newline at end of file
+tmp/
diff --git a/.pueue.yml b/.pueue.yml
new file mode 100644
index 0000000..a1787c9
--- /dev/null
+++ b/.pueue.yml
@@ -0,0 +1,34 @@
+client:
+ restart_in_place: true
+ read_local_logs: true
+ show_confirmation_questions: false
+ edit_mode: toml
+ show_expanded_aliases: false
+ dark_mode: false
+ max_status_lines: null
+ status_time_format: '%H:%M:%S'
+ status_datetime_format: |-
+ %Y-%m-%d
+ %H:%M:%S
+daemon:
+ pause_group_on_failure: false
+ pause_all_on_failure: false
+ compress_state_file: false
+ callback: /home/ywtang/bin/pueue-ntfy "{{ id }}" "{{ command }}" "{{ path }}" "{{ result }}"
+ env_vars: {}
+ callback_log_lines: 10
+ shell_command: null
+shared:
+ pueue_directory: /home/ywtang/project/biyelunwen/.pueue
+ runtime_directory: null
+ alias_file: null
+ use_unix_socket: true
+ unix_socket_path: null
+ unix_socket_permissions: 448
+ host: 127.0.0.1
+ port: '6924'
+ pid_path: null
+ daemon_cert: /home/ywtang/project/biyelunwen/.pueue/certs/daemon.cert
+ daemon_key: /home/ywtang/project/biyelunwen/.pueue/certs/daemon.key
+ shared_secret_path: /home/ywtang/project/biyelunwen/.pueue/shared_secret
+profiles: {}
diff --git a/slides/20251213/pages/技术路线.md b/slides/20251213/pages/技术路线.md
index 7f78ab4..b1831e3 100644
--- a/slides/20251213/pages/技术路线.md
+++ b/slides/20251213/pages/技术路线.md
@@ -45,7 +45,7 @@ end
subgraph subgraph2[Step2. 同源基因集聚类]
direction LR
- ass[转录本]:::warn --> CDS[预测CDS,抽取最长转录本的最长ORF作为输入CDS,TransDecoder]:::done
+ ass[转录本]:::warn --> CDS[预测CDS,抽取最长转录本的最长ORF作为输入CDS,TD2]:::done
CDS --> reducedCDS[单样本CDS序列去冗余,CD-HIT]:::done
reducedCDS --> ortho[基因家族聚类得到低拷贝同源基因集,OrthoFinder]:::done
ortho --> homolog[将枣的同源基因整合到低拷贝同源基因集中, hmmer]:::done
@@ -53,7 +53,7 @@ end
subgraph subgraph3[Step3. 基因集筛选与基因树]
direction LR
- homo[低拷贝同源基因集]:::warn --> alignment[基于蛋白序列比对,mafft/pal2nal
修剪比对序列,trimAl]:::done
+ homo[低拷贝同源基因集]:::warn --> alignment[基于蛋白序列比对,macse
修剪比对序列,trimAl]:::done
alignment --> treeshrink[fasttree快速构树,基于长枝吸引(treeshrink)和比对序列长度过滤基因集]:::done
treeshrink --> modeltest[序列进化模型检验,modeltest-ng]:::done
modeltest --> raxml[构建ML单基因树]:::done