fix yaml to get only one section_label per tool (#652)

* fix yaml to get only one section_label per tool

* fix lock files

* put sample_seqs in Filter and Sort

asaim.yaml

@@ -118,7 +118,7 @@ tools:
 
   - name: 'interproscan5'
     owner: 'bgruening'
-    tool_panel_section_label: 'Metagenomic Analysis'
+    tool_panel_section_label: 'Annotation'
 
     # combination_taxo_func
   - name: 'combine_metaphlan2_humann2'
@@ -133,10 +133,10 @@ tools:
 
   - name: 'taxonomy_krona_chart'
     owner: 'crs4'
-    tool_panel_section_label: 'Graph/Display Data'
+    tool_panel_section_label: 'Metagenomic Analysis'
 
     # AMR
-    name: 'kleborate'
+  - name: 'kleborate'
     owner: 'iuc'
     tool_panel_section_label: 'Metagenomic Analysis'
 

asaim.yaml.lock

@@ -215,7 +215,7 @@ tools:
   owner: bgruening
   revisions:
   - 82547f0d3a29
-  tool_panel_section_label: Metagenomic Analysis
+  tool_panel_section_label: Annotation
 - name: combine_metaphlan2_humann2
   owner: bebatut
   revisions:

bgruening.yaml

@@ -273,7 +273,7 @@ tools:
 
   - name: format_cd_hit_output
     owner: bebatut
-    tool_panel_section_label: Metagenomic Analysis
+    tool_panel_section_label: Multiple Alignments
 
   - name: format_metaphlan2_output
     owner: bebatut

bgruening.yaml.lock

@@ -909,7 +909,7 @@ tools:
   owner: bebatut
   revisions:
   - 64da677bcee2
-  tool_panel_section_label: Metagenomic Analysis
+  tool_panel_section_label: Multiple Alignments
 - name: format_metaphlan2_output
   owner: bebatut
   revisions:

cheminformatics.yaml

@@ -31,38 +31,38 @@ tools:
   - name: ctb_im_cluster_butina
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
-    
+
   - name: ctb_im_standardize
     owner: bgruening
-    tool_panel_section_label: ChemicalToolBox    
+    tool_panel_section_label: ChemicalToolBox
 
   - name: ctb_im_o3dalign
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
- 
+
   - name: ctb_im_cluster_butina_matrix
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
-  
+
   - name: traj_selections_and_merge
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
 
   - name: ctb_im_constrained_conf_gen
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
-  
+
   - name: ctb_im_conformers
     owner: bgruening
-    tool_panel_section_label: ChemicalToolBox    
+    tool_panel_section_label: ChemicalToolBox
 
   - name: ctb_im_rxn_smarts_filter
     owner: bgruening
-    tool_panel_section_label: ChemicalToolBox 
+    tool_panel_section_label: ChemicalToolBox
 
   - name: ctb_im_pbf_ev
     owner: bgruening
-    tool_panel_section_label: ChemicalToolBox 
+    tool_panel_section_label: ChemicalToolBox
 
   - name: openduck_run_smd
     owner: bgruening
@@ -139,7 +139,7 @@ tools:
   - name: padel
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
-  
+
   - name: md_converter
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
@@ -158,7 +158,7 @@ tools:
 
   - name: gmx_md
     owner: chemteam
-    tool_panel_section_label: ChemicalToolBox 
+    tool_panel_section_label: ChemicalToolBox
 
   - name: gmx_merge_topology_files
     owner: chemteam
@@ -168,11 +168,11 @@ tools:
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
 
-  - name:  gmx_fep
+  - name: gmx_fep
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
 
-  - name:  gmx_trj
+  - name: gmx_trj
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
 
@@ -184,22 +184,22 @@ tools:
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
 
-  - name:  gmx_makendx
+  - name: gmx_makendx
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
 
-  - name:  gmx_editconf
+  - name: gmx_editconf
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
 
-  - name:  gmx_check
+  - name: gmx_check
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
 
-  - name:  alchemical_analysis
+  - name: alchemical_analysis
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
-    
+
   - name: ctb_rdkit_descriptors
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
@@ -211,7 +211,7 @@ tools:
   - name: mdanalysis_angle
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
- 
+
   - name: mdanalysis_rdf
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
@@ -244,7 +244,7 @@ tools:
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
 
-  - name: acpype_amber2gromacs 
+  - name: acpype_amber2gromacs
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
 
@@ -263,12 +263,12 @@ tools:
   - name: bio3d_rmsd
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
- 
+
   - name: bio3d_pca
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
 
-  - name: bio3d_pca_visualize 
+  - name: bio3d_pca_visualize
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
 
@@ -299,55 +299,55 @@ tools:
   - name: openbabel_remsmall
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
- 
+
   - name: openbabel_obgrep
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
- 
+
   - name: openbabel_change_title
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
 
   - name: openbabel_genprop
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
- 
+
   - name: openbabel_remions
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
- 
+
   - name: openbabel_multi_obgrep
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
-  
+
   - name: openbabel_svg_depiction
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
-  
+
   - name: openbabel_spectrophore_search
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
- 
+
   - name: openbabel_remove_protonation_state
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
- 
+
   - name: openbabel_compound_convert
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
- 
+
   - name: openbabel_subsearch
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
 
   - name: openbabel_filter
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
- 
+
   - name: openbabel_addh
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
- 
+
   - name: openbabel_remduplicates
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
@@ -391,15 +391,15 @@ tools:
   - name: ambertools_parmchk2
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
- 
+
   - name: chembl
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
-    
+
   - name: chembl_structure_pipeline
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
- 
+
   - name: fpocket
     owner: bgruening
     tool_panel_section_label: ChemicalToolBox
@@ -427,11 +427,11 @@ tools:
   - name: smina
     owner: earlhaminst
     tool_panel_section_label: ChemicalToolBox
-    
+
   - name: gmx_rg
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
-    
+
   - name: acpype_amber2gromacs
     owner: chemteam
     tool_panel_section_label: ChemicalToolBox
@@ -454,4 +454,4 @@ tools:
 
   - name: gmx_rmsf
     owner: chemteam
-    tool_panel_section_label: ChemicalToolBox
+    tool_panel_section_label: ChemicalToolBox

climate.yaml

@@ -79,11 +79,9 @@ tools:
   - name: gdal_gdaladdo
     owner: ecology
     tool_panel_section_label: 'GIS Data Handling'
-
   - name: gdal_gdalbuildvrt
     owner: ecology
     tool_panel_section_label: 'GIS Data Handling'
-
   - name: gdal_gdalinfo
     owner: ecology
     tool_panel_section_label: 'GIS Data Handling'
@@ -99,27 +97,23 @@ tools:
   - name: gdal_gdalwarp
     owner: ecology
     tool_panel_section_label: 'GIS Data Handling'
-
   - name: gdal_ogr2ogr
     owner: ecology
     tool_panel_section_label: 'GIS Data Handling'
 
   - name: gdal_ogrinfo
     owner: ecology
-    tool_panel_section_label: 'GIS Data Handling'    
+    tool_panel_section_label: 'GIS Data Handling'
 
   - name: spocc_occ
     owner: ecology
     tool_panel_section_label: 'Get Data'
-
   - name: datamash_ops
     owner: iuc
     tool_panel_section_label: 'Join, Subtract and Group'
-
   - name: datamash_reverse
     owner: iuc
     tool_panel_section_label: 'Join, Subtract and Group'
-
   - name: datamash_transpose
     owner: iuc
     tool_panel_section_label: 'Join, Subtract and Group'

cpt.yaml

@@ -7,43 +7,43 @@ tools:
   - name: cpt_fasta_remove_id
     owner: cpt
     tool_panel_section_label: FASTA/FASTQ
-    
+
   - name: cpt_get_orfs
     owner: cpt
     tool_panel_section_label: Annotation
-    
+
   - name: cpt_convert_mga
     owner: cpt
     tool_panel_section_label: Convert Formats
-    
+
   - name: cpt_gff_add_parents
     owner: cpt
     tool_panel_section_label: Annotation
-    
+
   - name: cpt_fix_aragorn
     owner: cpt
     tool_panel_section_label: Convert Formats
-    
+
   - name: cpt_fix_sixpack
     owner: cpt
     tool_panel_section_label: Annotation
-    
+
   - name: cpt_shinefind
     owner: cpt
     tool_panel_section_label: Annotation
-    
+
   - name: cpt_type_filter
     owner: cpt
     tool_panel_section_label: Annotation
-    
+
   - name: cpt_req_phage_start
     owner: cpt
     tool_panel_section_label: Annotation
-    
+
   - name: cpt_remove_annotations
     owner: cpt
     tool_panel_section_label: Annotation
-    
+
   - name: cpt_prep_for_apollo
     owner: cpt
     tool_panel_section_label: Annotation
@@ -63,7 +63,7 @@ tools:
   - name: cpt_lipory
     owner: cpt
     tool_panel_section_label: Annotation
-    
+
   - name: cpt_intersect_adjacent
     owner: cpt
     tool_panel_section_label: Annotation