diff --git a/.gitignore b/.gitignore index 49214cc..8b87bda 100644 --- a/.gitignore +++ b/.gitignore @@ -1,4 +1,8 @@ - workspaceVS.code-workspace obj/result.html src/.vscode/.ropeproject/config.py +.idea/ +.vs/ +.vscode/ +*.class +*o \ No newline at end of file diff --git a/.idea/misc.xml b/.idea/misc.xml new file mode 100644 index 0000000..d1e22ec --- /dev/null +++ b/.idea/misc.xml @@ -0,0 +1,4 @@ + + + + \ No newline at end of file diff --git a/CompteRendu.md b/CompteRendu.md new file mode 100644 index 0000000..8c3e274 --- /dev/null +++ b/CompteRendu.md @@ -0,0 +1,107 @@ +# Manipulation interactive des graphes avec Sage +Le logiciel SageMath, est un logiciel connu libre et open-source de calcul mathématiques très populaire auprès des scientifiques. Il contient une grande partie implémentée concernant les graphes et leurs algorithmes (le backend programmé en Python). En revanche le frontend est actuellement assez limité et l'utilisateur doit presque entièrement passer par la ligne de commandes. On peut visualiser les graphes en différents formats, et notamment sur un navigateur sous forme d'objets graphiques avec la librairie Javascript d3js, mais on ne peut pas les manipuler "à la main". L'an dernier une équipe d'étudiants de l'IUT avait produit une solution pour résoudre ce problème et permettre une manipulation interactive des graphes à travers un navigateur. Leur solution est ici : https://github.com/NaokimTheFirst/JS_Graph_Sage + +Le but du projet est de terminer le travail en enrichissant cette solution. Il s'agit d'ajouter des nouvelles fonctionnalités interactives de manipulations des dessins et les intégrer au projet SageMath. Une possibilité serait de programmer des déroulements d'algos de Sage existants sur un navigateur. Technos : Python (avec SageMath), Javascript, Git. + +### Tuteur : Valicov + +#### 24/01/2022 - 2e rdv avec tuteur +- Creation d'un fork : https://github.com/Dalwaj/JS_Graph_Sage +- Pull des modifications pour 'attach' par Jawad +- A faire : Diagramme de classes (+ sequences), ajouter les fonctionnalités à l'interface graphique (afficher nombre de sommets, déplacer la partie du graph sélectionnée...) + +#### 03/02/2022 - 3e rdv avec tuteur +*Problèmes à resoudre :* +- animation du drag d'une multiselection (à voir si c'est lié au renouvellement trop rapide du fenêtre), +- perte de connexion lors de renouvellement du fenetre, +- absense de connexion inverse entre SageMath et JS_Graph, +- les types des sommets sont transformés en string lors de la connexion. + +*Solution proposée pour le problème des strings :* créer un dictionnaire (une map) qui associe à chaque sommet v du graphe initial une chaîne de caractères cv qui est sa représentation textuelle que vous allez utiliser dans le format JSON. Toutes les opération que vous allez effectuer dans d3js sur cv seront transposé sur v à travers ce dictionnaire. + +#### 10/02/2022 - 4e rdv +*Nouvelles choses à faire :* +- voir les fichiers _things-to-add.md_ et _ToDo.md_. +- enovoyer le graph en JSON de Python à JavaScript pour remplacer le graphe precedent avec innerHTML (mission déjà accomplie :) ). +- pouvoir relancer la page sans perdre la connexion. + +*Travail fait :* +- Mapping des sommets dans un dict pour preserver les types d'origin. +- Possibilite de modifier le graphe dans ls terminal et importer les changements dans l'interface graphique avec le bouton "Renew Graph". + +#### 18/02/2022 - 5e rdv +*Nouvelles choses à faire :* +- Pour tout le monde : + 1. faire le menage sur le dépôt en effaçant les fichiers de configuration (personnels), du type : .vscode, .idea, .class, .o etc. + 2. faire `git rm --cache obj/result.html` + 3. ajouter à gitignore : + ``` + .idea/ + .vs/ + .vscode/ + *.class + *o + ``` + 4. faire `git add .` et `git commit` +- Comprendre comment D3.js marche dans le code et faire migrer vers une version plus récente. Voir les liens : +https://observablehq.com/@d3/d3v6-migration-guide +https://blog.devgenius.io/d3-js-whats-new-in-version-6-5f45b00a85cb +- Permettre à l'utilisateur de sortir du terminal sage avec `exit`. +- Trouver un moyen de remplacer les getters dans InterfaceAndMisc.js par un seul getter. +- Les propriétés "lourdes" (qui prennent le temps pour que le sage les compte), ne doivent être affichées que si l'utilisateur les demande explicitement. Voir _things-to-add.md_/Hard Stuff. +- Chercher le moyen à copier le project board GitHub à un autre compte (organisation ou utilisateur) pour pouvoir le lier au dépot GitHub. +- Pour l'affichage de girth : Bug avec graphs.ClawGraph(), car girth est infinie. Il faut passer une exception dans le code. + +*Travail fait :* +- Possibilite de modifier le graphe dans ls terminal et importer les changements dans l'interface graphique avec le bouton "Renew Graph" (Bouton à renommer et repositionner). +- Possibilité de refraichir la page sans perdre la connexion (permet d'importer les changements de même manière que "Renew Graph"). +- Refraichir la page ou "Renew Graph" peuvent être utilisés pour repositionner le graph au centre de l'écran et optimiser ça taille. +- Diagramme de séquence pour le processus de connexion (mes changements dans le code original sont marqués en rouge). +- Affichage de plusieurs nouvelles propriétés du graph dans le menu : degrés max et min, is eulerian, hamiltonicity. +- Affichage du graph sous format G6. +- Possibilité de questionner le site _The House Of Graphs_ si le graphe obtenu est déjà connu. +- Project Board crée sur GitHub pour le backlog de nos user stories (à deplacer). Voir : https://github.com/users/sea-gull-diana/projects/1/ + +#### 25/02/2022 - 6e rdv +*Nouvelles choses à faire :* +- Changer ownership du dépot vers une organisation (et copier-coller le project board vers cette organisation). +- Comment attribuer des portes ? Coder en dur ou choisir n'importe quel porte disponible (voir si les portes sont regroupées par famille et on peut choisir une famille à utiliser). +- Changer la méthode de coloration optimale. Utiliser la fonction du sage plus optimale (voir email). +- La division en groupes à enlever (fonctionnalité non finie, donc le champ du groupe dans le menu sert à rien). +- La prémière ébauche du rapport à faire et envoyer à M. Valicov pendant les vacances. + +*Travail fait :* +- Connexion aux portes différentes selon la disponibilité (bugs à fixer voir au-dessus). +- Spanning tree (coloration des arêtes d'un arbre couvrant). + +#### 30/03/2022 - 7e rdv +*Nouvelles choses à faire :* +- Faire une réunion du groupe pour merge tout ce qu'on a fait sur GitHub (LE PLUS IMPORTANT - faire avant le rdv suivant). +- Encore quelques boutons à ajouter (voir Project Board). +- Edge contruction + +*Travail fait :* +- Affichage des classes de coloration sous la forme du texte +- Bug fixé dans l'affichage de l'arbre recouvrant +- Plan du rapport preparé ; +- Redaction du rapport commencé : [voir document sur OneDrive](https://1drv.ms/w/s!Ah20cN1s-zt3h78TY4GmdzCLvJmvOQ?e=JR4fun). + +#### 04/11/2022 - 8e rdv +*Nouvelles choses à faire :* +- Separer dans le menu Orientations et Algorithmic/Hard Stuff +- Resoudre le probleme : les sommets recoivent les coordonées qu'ils n'ont pas a l'origin +Lorsqu'on dessine le graph avec `show_CustomJS`, on ajoute les coordonées aux sommets, l'objet change donc de nature. +**Solution :** +Faire un bouton("save") qui permet de fixer l'embedding (la possibilité de freeze les coordonéees des sommets). Mais si on ne clique pas ce bouton, les sommets ne doivent pas avoir des coordonnes. +**Fonctions utiles :** +`set_pos()` pour donner les coordonnees aux sommets. +`graph.set_embedding()` position des sommets par rapport l'un a l'autre. +- Utiliser le layout `spring` de Sage par defaut dans `show_CustomJS` pour bien dessiner le graphe. +- Edge contraction : plutot que `graph.contract_edge(0,1)`, utiliser la methode `graph.merge_vertices()` + +*Travail fait :* +- merge des branches effectué (branche `obada` et les dernieres versions des branches `jawad` et `mathis` en attente) +- Problème de "Girth" reglé, mais pas encore ajouté à master +- Bug corrigé dans l'affichage des graphes avec des sommets de type objet + +**Prochaine reunion :** mercredi 20/04 a 9h00 diff --git a/README.md b/README.md index 23a736e..36043fc 100644 --- a/README.md +++ b/README.md @@ -1,61 +1,22 @@ # JS_Graph_Sage New version of the Javascript visualization of Sage with D3.js -Student project -Project's logbook : -https://docs.google.com/document/d/1wu1qKDCjxPgVY6a5Im5XkJSdYcvF8YcselkqUSTHnds/edit?usp=sharing +This project was started by the students of Licence Pro at IUT of Montpellier 2 years ago and taken by our group (students on DUT informatique) to improve and debug. -Project's Trello : -https://trello.com/b/7y723RZk/sagemathgraph +# User Guide +### Step 1 +Download the source code from GitHub and make sure you have SageMath installed. -Sources : -https://github.com/d3/d3/wiki (D3.js documentation) -http://bl.ocks.org/tgk/6068367 (example we used to add nodes) -https://developer.mozilla.org/en-US/docs/Web/SVG/Element (documentation of SVG elements) -https://travishorn.com/updating-dynamic-data-in-d3-15ce4a9fa856 (data updating in D3.js) -https://www.d3-graph-gallery.com/interactivity.html (interactivity with displaying) +### Step 2 +Unzip the source code and type `attach("path_to_file_init_CustomJS.py")` in your Sage terminal. +For example, if you place the project in a folder where your `.sage/` directory is located, you should tap `attach("JS_Graph_Sage/src/Python/init_CustomJS.py")`. --------------- +### Step 3 +Now you can launch the interface by creating a graph in terminal (for example: `g = graphs.CompleteGraph(20)`) and typing `show_CustomJS(g)`. +Make sure you have Internet connection. -Methods explanation : -METHODS USED IN window.onload : - - LoadGraphData() - Loads the data from the graph and puts index on nodes - - InitGraph() - Transfers all the data from the JSON to a D3.js graph object (force) - Adapts the graph layout to the javascript window's dimensions - - KeyboardEventInit() - Launched at each key press, triggers an action depending on the key - - ManageAllGraphicsElements() - Creates the D3 version of the window, nodes, edges, zooming - - InitForce() - Determines a position for each element and adds a force layout to have a dynamic positionning of the nodes and edges - - - -METHODS USED IN KeyboardEventInit() : - - RemoveElement(currentObject) - Deletes the mouseovered element. If it's a node, deletes the connected edges - - AddNode() - Creates a node at the position of the cursor - - FreezeGraph() - Stops the forces simulation to easily manipulate the graph. - If the graph is already frozen, unfreezes it. - - - -OTHER : - - AddEdge(src, dest) - Creates an edge between the src and the dest, wich are the names of two nodes of the graph \ No newline at end of file +### Importing changes from terminal +If the modifications you want to add cannot be made in the interface, you can run the necessary commands in Sage terminal and click `Redraw Graph` button on top of the page to import changes. Or you can simply reload the page. \ No newline at end of file diff --git a/Rapport/CommandManagerSequence.pdf b/Rapport/CommandManagerSequence.pdf new file mode 100644 index 0000000..be79cc0 Binary files /dev/null and b/Rapport/CommandManagerSequence.pdf differ diff --git a/ToDo.md b/ToDo.md new file mode 100644 index 0000000..eddee84 --- /dev/null +++ b/ToDo.md @@ -0,0 +1,17 @@ +# Choses à faire + +- [X] Changer methode d'installation et premier execution ( changer attach (c'est une importation)): ne pas demander path_to_projet_repo le charger auto sans demander : recuperer l'endroit ou on utilise sage math +- [X] Faire selection groupee +- [X] Ajouter le nb des sommets / aretes dans le menu gauche +- [ ] Diagrammes de séquence sur le processus de connexion +- [ ] Ameliorer la passerelle entre la fenetre web et la boite de commande (Problemes : perte de connexion lors de renouvellement du fenetre) +- [X] Connexion inverse entre SageMath et JS_Graph +- [ ] Empecher la modif de l'interface web a la ligne de commande a chaque modif ? (à clarifier) +- [X] Pb retour modification du graph de la perte de donnee : des int redeveinne des chaine de charactere au retour +- [ ] Fonction permettant de customiser l'interface personnel +- [ ] Diviser la page en deux parties scrollables : partie Menu à gauche et partie Graphe à droite (scrolling responsif) +- [ ] Zoom in / Zoom out de la partie Graphe +- [ ] Ajouter une fonctionnalite : encoder un graph en J6 et afficher toujours sur la page . J6 format dans lequel Sage permet encoder le graph (g.graph6_string()). Pour reconstituer le graph : g.Graph('string J6') ! 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objets pour les noeuds retirer le tmpJS.obj + +Notes about how the connection to server works: +launch_connection() : creates a thread and connects to server with connect() function. The reference to the server is stored in current_server global variable. + +Notice : methods new_client, client_left and message_received presented below are called and passed arguments by other methods in websocket_server.py which was probably just downloaded and not written by the IUT students, so we won't try to analyze how it works. + +new_client(client, server) : checks graph_client_dict variable for the id of client (function's argument) and calls end_connection_client(client, server) if the id is not there (i.e. if the id is not in graph_client_dict client will be disconnected). + +client_left(client, server) : checks graph_client_dict variable for the id of client (function's argument) and if so, removes the corresponding key-value pair from the dict. If the graph_client_dict appears to be empty after that, it calls server.shutdown() and disconnects from the server completely. + +message_received(client, server, message) : if the client is not in the graph_client_dict it just calls end_connection_client(client, server). Otherwise, it gets corresponding graph from graph_client_dict and converts message to JSON object that seeminly has two attributes : parameter and message. After that, it gets some response from handle_message(JSONmessage.parameter,newGraph) function which returns the parameter that was requested in the message (as a list of size 2) + graph (useful if needed to convert graph to something new, for example to directed graph). The graph is either renewed in JavaScript (new functionality added by yours truly) or updated in SageMath. The handle_message response is a list of size 2 containing the string indicating which parameter it is and the parameter itself (graph, color, string message...). This response is encoded as JSON and sent to JavaScript with server.send_message(client,returnMessage) method. + +WaitServer() : just waits until current_server variable is not None, i.e. the connection with server is established. + +client_dictionnary_verification(G) : apparently is needed to avoid displaying the same graph in two windows. I.e. if the graph you pass to show_CustomJS is the same as the one you have already opened in browser, the connection for the old graph will be closed (Note: possible bug - no such function as end_connection(), probably meant end_connection_client()). + +graph_client_dict : a dict that has server clients' id as its keys and Sage graphs as values. Every new show_CustomJS() adds a new line in this dict with the next smallest int as id/key unless previous windows were closed. + +graph_to_JSON(G, layout=layout) : converts SageMath graph to JSON object setting nodes' according to a certain layout if it was provided. + +gen_html_code(JSONgraph) : takes text from base_html.html, changes it adding JSON graph and d3js script and then writes this text into result.html file (base_html.html remains unchanged). + +show_CustomJS(G, layout=None) : checks if the variable current_server is not None (i.e. the connection with server already exists), if not, adds the first key-value pair to graph_client_dict (id = 1; value = graph) and calls launch_connection() + WaitServer(). If connection is already there, it calls client_dictionnary_verification(G) and adds new pair to the dict with id/key = current_server.id_counter + 1. Finally it converts graph to JSON with graph_to_JSON method and opens modified result.html in browser by calling webbrowser.open('file://'+os.path.realpath(gen_html_code(JSONgraph))). + +Note: both JavaScript and Python use the same 9001 port to create linked WebSocket objects. + +Si le Sage affiche une erreur OSError: [Errno 112] Address already in use: + netstat -ano | findstr :9001 - affiche a la fin le PID du processus + taskkill (/F) /PID numeroDePIDTrouve - pour kill le processus sur Windows + +Parfois ce probleme peut etre regle par une simple fermeture du terminal Sage et tous les tabs result.html. \ No newline at end of file diff --git a/obj/result.html b/obj/result.html index 107ebe0..8723623 100644 --- a/obj/result.html +++ b/obj/result.html @@ -1,194 +1,257 @@ - - - - - - - - - - - - + + + + JS_Graph_Sage + + + + + + + + -