diff --git a/.gitignore b/.gitignore index 852a3c27..f45322da 100644 --- a/.gitignore +++ b/.gitignore @@ -13,3 +13,4 @@ /site_libs *.rmarkdown /.luarc.json +/tmp diff --git a/team/_rerender_contributors.R b/team/_rerender_contributors.R index 44e08234..bb3b4fbc 100644 --- a/team/_rerender_contributors.R +++ b/team/_rerender_contributors.R @@ -1,10 +1,15 @@ library(rlang) repositories <- c( - "openproblems-bio/openproblems", - # "openproblems-bio/task_dimensionality_reduction", - # "openproblems-bio/task_spatially_variable_genes", - "openproblems-bio/task_perturbation_prediction" + "openproblems-bio/task_denoising", + "openproblems-bio/task_dimensionality_reduction", + "openproblems-bio/task_spatially_variable_genes", + "openproblems-bio/task_perturbation_prediction", + "openproblems-bio/task_batch_integration", + "openproblems-bio/task_cell_cell_communication", + "openproblems-bio/task_label_projection", + "openproblems-bio/task_spatial_decomposition", + "openproblems-bio/task_predict_modality" ) cache_repository <- function(repo) { @@ -20,7 +25,13 @@ cache_repository <- function(repo) { zzz <- processx::run("git", c("fetch", "--all"), wd = repo_dir) # reset the repository to the latest commit - zzz <- processx::run("git", c("pull", "origin", "main"), wd = repo_dir) + if (repo == "openproblems-bio/task_spatial_decomposition") { + zzz <- processx::run("git", c("pull", "origin", "add-missing-authors"), wd = repo_dir) + } else if (repo == "openproblems-bio/task_dimensionality_reduction") { + zzz <- processx::run("git", c("pull", "origin", "add_author"), wd = repo_dir) + } else { + zzz <- processx::run("git", c("pull", "origin", "main"), wd = repo_dir) + } # return the path to the repository return(repo_dir) @@ -28,12 +39,12 @@ cache_repository <- function(repo) { find_task_info <- function(repo_dir) { # find all authors in the repository - task_info <- list.files(repo_dir, pattern = "task_info.yaml", full.names = TRUE, recursive = TRUE) - task_info <- task_info[grep("/api/task_info.yaml", task_info)] + # task_info <- list.files(repo_dir, pattern = "task_info.yaml", full.names = TRUE, recursive = TRUE) + # task_info <- task_info[grep("/api/task_info.yaml", task_info)] - if (length(task_info) > 0) { - return(task_info) - } + # if (length(task_info) > 0) { + # return(task_info) + # } viash_yaml <- list.files(repo_dir, pattern = "_viash.yaml", full.names = TRUE, recursive = TRUE) @@ -52,8 +63,18 @@ render_author <- function(author) { email_clean <- tolower(stringr::str_trim(author$info$email)) checksum <- digest::digest(email_clean, algo = "md5", serialize = FALSE) paste0("https://www.gravatar.com/avatar/", checksum) - } else { + } else if (file.exists("/images/avatar.svg")){ "/images/avatar.svg" + } else { + # generate random avatar + name <- strsplit(author$name, " ") + url <- paste0("https://avatar.iran.liara.run/username?username=",name[[1]][[1]],"+",name[[1]][[2]]) + output_dir <- file.path("tmp", gsub(" ", "_", author$name)) + if (!dir.exists(output_dir)) { + dir.create(output_dir, recursive = TRUE) + } + download.file(url, file.path(output_dir, "avatar.png"), mode = "wb") + "avatar.png" } # process links @@ -74,7 +95,7 @@ render_author <- function(author) { }, orcid = function(value) { list( - icon = "fa-brands fa-orcid", + icon = "fa-brands--orcid", text = "ORCID", href = paste0("https://orcid.org/", value) ) @@ -98,8 +119,8 @@ render_author <- function(author) { out <- list( title = author$name, image = out_image, - # role = paste(stringr::str_to_title(author$roles), collapse = ", "), - role = "Task Contributor", + role = paste(stringr::str_to_title(author$roles), collapse = ", "), + # role = "Task Contributor", about = list( template = "jolla", links = out_links @@ -162,18 +183,22 @@ for (task_name in names(tasks)) { author <- task$authors[[author_id]] txt <- render_author(author) - file_path <- file.path("team", "task_contributors", paste0(author_id, "/index.qmd")) + file_path <- file.path("team", "task_contributors", task_name, paste0(author_id, "/index.qmd")) if (!dir.exists(dirname(file_path))) { dir.create(dirname(file_path), recursive = TRUE) } writeLines(txt, file_path) + + if (file.exists(file.path("tmp", gsub(" ", "_", author$name), "avatar.png"))) { + file.rename(file.path("tmp", gsub(" ", "_", author$name), "avatar.png"), file.path(dirname(file_path), "avatar.png")) + } + } } -teams <- list.dirs("team", full.names = FALSE, recursive = FALSE) -teams <- teams[!teams %in% c("core_members", "scientific_advisors")] +teams <- list.dirs("team/task_contributors", full.names = FALSE, recursive = FALSE) teams_headers <- paste0( " - id: ", teams, " @@ -183,7 +208,7 @@ teams_headers <- paste0( sort: ''" ) teams_index <- paste0( -"## ", stringr::str_to_title(gsub("_", " ", teams)), " +"### ", stringr::str_to_title(gsub("_", " ", teams)), " :::{#", teams, "} ::: @@ -220,6 +245,8 @@ css: team.css :::{#scientific_advisors} ::: +## Task Contributors + ", paste(teams_index, collapse = "\n"), " ") diff --git a/team/core_members/burkhardt_daniel/index.qmd b/team/core_members/burkhardt_daniel/index.qmd index 418683ac..85217032 100644 --- a/team/core_members/burkhardt_daniel/index.qmd +++ b/team/core_members/burkhardt_daniel/index.qmd @@ -21,7 +21,7 @@ about: - icon: bi-linkedin text: LinkedIn href: https://www.linkedin.com/in/daniel-burkhardt/ - - icon: fa-brands fa-orcid + - icon: fa-brands--orcid text: ORCID href: https://orcid.org/0000-0001-7744-1363 --- \ No newline at end of file diff --git a/team/core_members/cannoodt_robrecht/index.qmd b/team/core_members/cannoodt_robrecht/index.qmd index 65083c3d..2acb8b67 100644 --- a/team/core_members/cannoodt_robrecht/index.qmd +++ b/team/core_members/cannoodt_robrecht/index.qmd @@ -21,7 +21,7 @@ about: - icon: bi-linkedin text: LinkedIn href: https://www.linkedin.com/in/robrecht-cannoodt/ - - icon: fa-brands fa-orcid + - icon: fa-brands--orcid text: ORCID href: https://orcid.org/0000-0003-3641-729X --- diff --git a/team/core_members/gigante_scott/index.qmd b/team/core_members/gigante_scott/index.qmd index 1e88d5ce..658f9411 100644 --- a/team/core_members/gigante_scott/index.qmd +++ b/team/core_members/gigante_scott/index.qmd @@ -22,7 +22,7 @@ about: - icon: bi-linkedin text: LinkedIn href: https://www.linkedin.com/in/scottgigante/ - - icon: fa-brands fa-orcid + - icon: fa-brands--orcid text: ORCID href: https://orcid.org/0000-0002-4544-2764 --- diff --git a/team/core_members/luecken_malte/index.qmd b/team/core_members/luecken_malte/index.qmd index 94075bbf..42cdf65d 100644 --- a/team/core_members/luecken_malte/index.qmd +++ b/team/core_members/luecken_malte/index.qmd @@ -21,7 +21,7 @@ about: - icon: bi-linkedin text: LinkedIn href: https://www.linkedin.com/in/malte-lücken-b8b21049/ - - icon: fa-brands fa-orcid + - icon: fa-brands--orcid text: ORCID href: https://orcid.org/0000-0001-7464-7921 --- diff --git a/team/index.qmd b/team/index.qmd index 54a25f29..63cacc6a 100644 --- a/team/index.qmd +++ b/team/index.qmd @@ -14,8 +14,48 @@ listing: type: grid template: members.ejs sort: '' - - id: task_contributors - contents: task_contributors/*/index.qmd + - id: batch_integration + contents: batch_integration/*/index.qmd + type: grid + template: members.ejs + sort: '' + - id: cell_cell_communication + contents: cell_cell_communication/*/index.qmd + type: grid + template: members.ejs + sort: '' + - id: denoising + contents: denoising/*/index.qmd + type: grid + template: members.ejs + sort: '' + - id: dimensionality_reduction + contents: dimensionality_reduction/*/index.qmd + type: grid + template: members.ejs + sort: '' + - id: label_projection + contents: label_projection/*/index.qmd + type: grid + template: members.ejs + sort: '' + - id: perturbation_prediction + contents: perturbation_prediction/*/index.qmd + type: grid + template: members.ejs + sort: '' + - id: predict_modality + contents: predict_modality/*/index.qmd + type: grid + template: members.ejs + sort: '' + - id: spatial_decomposition + contents: spatial_decomposition/*/index.qmd + type: grid + template: members.ejs + sort: '' + - id: spatially_variable_genes + contents: spatially_variable_genes/*/index.qmd type: grid template: members.ejs sort: '' @@ -34,7 +74,47 @@ css: team.css ## Task Contributors -:::{#task_contributors} +### Batch Integration + +:::{#batch_integration} +::: + +### Cell Cell Communication + +:::{#cell_cell_communication} +::: + +### Denoising + +:::{#denoising} +::: + +### Dimensionality Reduction + +:::{#dimensionality_reduction} ::: +### Label Projection + +:::{#label_projection} +::: +### Perturbation Prediction + +:::{#perturbation_prediction} +::: + +### Predict Modality + +:::{#predict_modality} +::: + +### Spatial Decomposition + +:::{#spatial_decomposition} +::: + +### Spatially Variable Genes + +:::{#spatially_variable_genes} +::: diff --git a/team/task_contributors/daniel_strobl/index.qmd b/team/task_contributors/batch_integration/daniel_strobl/index.qmd similarity index 64% rename from team/task_contributors/daniel_strobl/index.qmd rename to team/task_contributors/batch_integration/daniel_strobl/index.qmd index 0df75cd0..92d4b3ce 100644 --- a/team/task_contributors/daniel_strobl/index.qmd +++ b/team/task_contributors/batch_integration/daniel_strobl/index.qmd @@ -1,12 +1,15 @@ --- title: Daniel Strobl image: https://www.github.com/danielStrobl.png -role: Task Contributor +role: Author about: template: jolla links: - icon: bi-github text: GitHub href: https://github.com/danielStrobl + - icon: fa-brands--orcid + text: ORCID + href: https://orcid.org/0000-0002-5516-7057 --- diff --git a/team/task_contributors/kai_waldrant/index.qmd b/team/task_contributors/batch_integration/kai_waldrant/index.qmd similarity index 82% rename from team/task_contributors/kai_waldrant/index.qmd rename to team/task_contributors/batch_integration/kai_waldrant/index.qmd index 5d9a888a..d148ef4e 100644 --- a/team/task_contributors/kai_waldrant/index.qmd +++ b/team/task_contributors/batch_integration/kai_waldrant/index.qmd @@ -1,14 +1,14 @@ --- title: Kai Waldrant image: https://www.github.com/KaiWaldrant.png -role: Task Contributor +role: Contributor about: template: jolla links: - icon: bi-github text: GitHub href: https://github.com/KaiWaldrant - - icon: fa-brands fa-orcid + - icon: fa-brands--orcid text: ORCID href: https://orcid.org/0009-0003-8555-1361 --- diff --git a/team/task_contributors/batch_integration/malte_luecken/index.qmd b/team/task_contributors/batch_integration/malte_luecken/index.qmd new file mode 100644 index 00000000..de2ec2f7 --- /dev/null +++ b/team/task_contributors/batch_integration/malte_luecken/index.qmd @@ -0,0 +1,15 @@ +--- +title: Malte Luecken +image: https://www.github.com/LuckyMD.png +role: Author +about: + template: jolla + links: + - icon: bi-github + text: GitHub + href: https://github.com/LuckyMD + - icon: fa-brands--orcid + text: ORCID + href: https://orcid.org/0000-0001-7464-7921 +--- + diff --git a/team/task_contributors/michaela_mueller/index.qmd b/team/task_contributors/batch_integration/michaela_mueller/index.qmd similarity index 61% rename from team/task_contributors/michaela_mueller/index.qmd rename to team/task_contributors/batch_integration/michaela_mueller/index.qmd index c0c0496c..e922c964 100644 --- a/team/task_contributors/michaela_mueller/index.qmd +++ b/team/task_contributors/batch_integration/michaela_mueller/index.qmd @@ -1,12 +1,15 @@ --- title: Michaela Mueller image: https://www.github.com/mumichae.png -role: Task Contributor +role: Maintainer, Author about: template: jolla links: - icon: bi-github text: GitHub href: https://github.com/mumichae + - icon: fa-brands--orcid + text: ORCID + href: https://orcid.org/0000-0002-1401-1785 --- diff --git a/team/task_contributors/batch_integration/nartin_kim/index.qmd b/team/task_contributors/batch_integration/nartin_kim/index.qmd new file mode 100644 index 00000000..74815b62 --- /dev/null +++ b/team/task_contributors/batch_integration/nartin_kim/index.qmd @@ -0,0 +1,15 @@ +--- +title: Nartin Kim +image: https://www.github.com/martinkim0.png +role: Contributor +about: + template: jolla + links: + - icon: bi-github + text: GitHub + href: https://github.com/martinkim0 + - icon: fa-brands--orcid + text: ORCID + href: https://orcid.org/0009-0003-8555-1361 +--- + diff --git a/team/task_contributors/cell_cell_communication/daniel_dimitrov/index.qmd b/team/task_contributors/cell_cell_communication/daniel_dimitrov/index.qmd new file mode 100644 index 00000000..d3f4e7e0 --- /dev/null +++ b/team/task_contributors/cell_cell_communication/daniel_dimitrov/index.qmd @@ -0,0 +1,12 @@ +--- +title: Daniel Dimitrov +image: https://www.github.com/dbdimitrov.png +role: Maintainer, Author +about: + template: jolla + links: + - icon: bi-github + text: GitHub + href: https://github.com/dbdimitrov +--- + diff --git a/team/task_contributors/cell_cell_communication/vishnuvasan_raghuraman/index.qmd b/team/task_contributors/cell_cell_communication/vishnuvasan_raghuraman/index.qmd new file mode 100644 index 00000000..8d48ce0c --- /dev/null +++ b/team/task_contributors/cell_cell_communication/vishnuvasan_raghuraman/index.qmd @@ -0,0 +1,12 @@ +--- +title: Vishnuvasan Raghuraman +image: https://www.github.com/vishnu-vasan.png +role: Contributor +about: + template: jolla + links: + - icon: bi-github + text: GitHub + href: https://github.com/vishnu-vasan +--- + diff --git a/team/task_contributors/denoising/kai_waldrant/index.qmd b/team/task_contributors/denoising/kai_waldrant/index.qmd new file mode 100644 index 00000000..d148ef4e --- /dev/null +++ b/team/task_contributors/denoising/kai_waldrant/index.qmd @@ -0,0 +1,15 @@ +--- +title: Kai Waldrant +image: https://www.github.com/KaiWaldrant.png +role: Contributor +about: + template: jolla + links: + - icon: bi-github + text: GitHub + href: https://github.com/KaiWaldrant + - icon: fa-brands--orcid + text: ORCID + href: https://orcid.org/0009-0003-8555-1361 +--- + diff --git a/team/task_contributors/wesley_lewis/index.qmd b/team/task_contributors/denoising/wesley_lewis/index.qmd similarity index 87% rename from team/task_contributors/wesley_lewis/index.qmd rename to team/task_contributors/denoising/wesley_lewis/index.qmd index ce2b2834..b3e77f66 100644 --- a/team/task_contributors/wesley_lewis/index.qmd +++ b/team/task_contributors/denoising/wesley_lewis/index.qmd @@ -1,7 +1,7 @@ --- title: Wesley Lewis image: https://www.github.com/wes-lewis.png -role: Task Contributor +role: Author, Maintainer about: template: jolla links: diff --git a/team/task_contributors/ben_demeo/index.qmd b/team/task_contributors/dimensionality_reduction/ben_demeo/index.qmd similarity index 88% rename from team/task_contributors/ben_demeo/index.qmd rename to team/task_contributors/dimensionality_reduction/ben_demeo/index.qmd index 371d2f04..94c3ba57 100644 --- a/team/task_contributors/ben_demeo/index.qmd +++ b/team/task_contributors/dimensionality_reduction/ben_demeo/index.qmd @@ -1,7 +1,7 @@ --- title: Ben DeMeo image: https://www.github.com/bendemeo.png -role: Task Contributor +role: Author about: template: jolla links: diff --git a/team/task_contributors/juan_a_cordero_varela/index.qmd b/team/task_contributors/dimensionality_reduction/juan_a_cordero_varela/index.qmd similarity index 83% rename from team/task_contributors/juan_a_cordero_varela/index.qmd rename to team/task_contributors/dimensionality_reduction/juan_a_cordero_varela/index.qmd index 90c48a45..f213306b 100644 --- a/team/task_contributors/juan_a_cordero_varela/index.qmd +++ b/team/task_contributors/dimensionality_reduction/juan_a_cordero_varela/index.qmd @@ -1,14 +1,14 @@ --- title: Juan A. Cordero Varela image: https://www.github.com/jacorvar.png -role: Task Contributor +role: Contributor about: template: jolla links: - icon: bi-github text: GitHub href: https://github.com/jacorvar - - icon: fa-brands fa-orcid + - icon: fa-brands--orcid text: ORCID href: https://orcid.org/0000-0002-7373-5433 --- diff --git a/team/task_contributors/dimensionality_reduction/kai_waldrant/index.qmd b/team/task_contributors/dimensionality_reduction/kai_waldrant/index.qmd new file mode 100644 index 00000000..d148ef4e --- /dev/null +++ b/team/task_contributors/dimensionality_reduction/kai_waldrant/index.qmd @@ -0,0 +1,15 @@ +--- +title: Kai Waldrant +image: https://www.github.com/KaiWaldrant.png +role: Contributor +about: + template: jolla + links: + - icon: bi-github + text: GitHub + href: https://github.com/KaiWaldrant + - icon: fa-brands--orcid + text: ORCID + href: https://orcid.org/0009-0003-8555-1361 +--- + diff --git a/team/task_contributors/luke_zappia/index.qmd b/team/task_contributors/dimensionality_reduction/luke_zappia/index.qmd similarity index 60% rename from team/task_contributors/luke_zappia/index.qmd rename to team/task_contributors/dimensionality_reduction/luke_zappia/index.qmd index 78a0123e..67e4f98c 100644 --- a/team/task_contributors/luke_zappia/index.qmd +++ b/team/task_contributors/dimensionality_reduction/luke_zappia/index.qmd @@ -1,12 +1,15 @@ --- title: Luke Zappia image: https://www.github.com/lazappi.png -role: Task Contributor +role: Maintainer, Author about: template: jolla links: - icon: bi-github text: GitHub href: https://github.com/lazappi + - icon: fa-brands--orcid + text: ORCID + href: https://orcid.org/0000-0001-7744-8565 --- diff --git a/team/task_contributors/dimensionality_reduction/michael_vinyard/index.qmd b/team/task_contributors/dimensionality_reduction/michael_vinyard/index.qmd new file mode 100644 index 00000000..29c5f27d --- /dev/null +++ b/team/task_contributors/dimensionality_reduction/michael_vinyard/index.qmd @@ -0,0 +1,12 @@ +--- +title: Michael Vinyard +image: https://www.github.com/mvinyard.png +role: Author +about: + template: jolla + links: + - icon: bi-github + text: GitHub + href: https://github.com/mvinyard +--- + diff --git a/team/task_contributors/michal_klein/index.qmd b/team/task_contributors/dimensionality_reduction/michal_klein/index.qmd similarity index 88% rename from team/task_contributors/michal_klein/index.qmd rename to team/task_contributors/dimensionality_reduction/michal_klein/index.qmd index 154e78fe..8f80299d 100644 --- a/team/task_contributors/michal_klein/index.qmd +++ b/team/task_contributors/dimensionality_reduction/michal_klein/index.qmd @@ -1,7 +1,7 @@ --- title: Michal Klein image: https://www.github.com/michalk8.png -role: Task Contributor +role: Author about: template: jolla links: diff --git a/team/task_contributors/sai_nirmayi_yasa/index.qmd b/team/task_contributors/dimensionality_reduction/sai_nirmayi_yasa/index.qmd similarity index 82% rename from team/task_contributors/sai_nirmayi_yasa/index.qmd rename to team/task_contributors/dimensionality_reduction/sai_nirmayi_yasa/index.qmd index f7c49640..426e9b0d 100644 --- a/team/task_contributors/sai_nirmayi_yasa/index.qmd +++ b/team/task_contributors/dimensionality_reduction/sai_nirmayi_yasa/index.qmd @@ -1,14 +1,14 @@ --- title: Sai Nirmayi Yasa image: https://www.github.com/sainirmayi.png -role: Task Contributor +role: Contributor about: template: jolla links: - icon: bi-github text: GitHub href: https://github.com/sainirmayi - - icon: fa-brands fa-orcid + - icon: fa-brands--orcid text: ORCID href: https://orcid.org/0009-0003-6319-9803 --- diff --git a/team/task_contributors/jiwei_liu/index.qmd b/team/task_contributors/jiwei_liu/index.qmd deleted file mode 100644 index 43578a8f..00000000 --- a/team/task_contributors/jiwei_liu/index.qmd +++ /dev/null @@ -1,18 +0,0 @@ ---- -title: Jiwei Liu -image: https://www.github.com/daxiongshu.png -role: Task Contributor -about: - template: jolla - links: - - icon: bi-github - text: GitHub - href: https://github.com/daxiongshu - - icon: bi-envelope - text: E-mail - href: mailto:jiweil@nvidia.com - - icon: fa-brands fa-orcid - text: ORCID - href: https://orcid.org/0000-0002-8799-9763 ---- - diff --git a/team/task_contributors/nikolay_markov/index.qmd b/team/task_contributors/label_projection/nikolay_markov/index.qmd similarity index 87% rename from team/task_contributors/nikolay_markov/index.qmd rename to team/task_contributors/label_projection/nikolay_markov/index.qmd index 4baaa9f8..b3d67620 100644 --- a/team/task_contributors/nikolay_markov/index.qmd +++ b/team/task_contributors/label_projection/nikolay_markov/index.qmd @@ -1,7 +1,7 @@ --- title: Nikolay Markov image: https://www.github.com/mxposed.png -role: Task Contributor +role: Author, Maintainer about: template: jolla links: diff --git a/team/task_contributors/andrew_benz/index.qmd b/team/task_contributors/perturbation_prediction/andrew_benz/index.qmd similarity index 82% rename from team/task_contributors/andrew_benz/index.qmd rename to team/task_contributors/perturbation_prediction/andrew_benz/index.qmd index 3d2aee38..f4062430 100644 --- a/team/task_contributors/andrew_benz/index.qmd +++ b/team/task_contributors/perturbation_prediction/andrew_benz/index.qmd @@ -1,14 +1,14 @@ --- title: Andrew Benz image: https://www.github.com/andrew-benz.png -role: Task Contributor +role: Author about: template: jolla links: - icon: bi-github text: GitHub href: https://github.com/andrew-benz - - icon: fa-brands fa-orcid + - icon: fa-brands--orcid text: ORCID href: https://orcid.org/0009-0002-8118-1861 --- diff --git a/team/task_contributors/artur_szaata/index.qmd b/team/task_contributors/perturbation_prediction/artur_szaata/index.qmd similarity index 82% rename from team/task_contributors/artur_szaata/index.qmd rename to team/task_contributors/perturbation_prediction/artur_szaata/index.qmd index f0fa8917..80a9699e 100644 --- a/team/task_contributors/artur_szaata/index.qmd +++ b/team/task_contributors/perturbation_prediction/artur_szaata/index.qmd @@ -1,14 +1,14 @@ --- title: Artur Szałata image: https://www.github.com/szalata.png -role: Task Contributor +role: Author about: template: jolla links: - icon: bi-github text: GitHub href: https://github.com/szalata - - icon: fa-brands fa-orcid + - icon: fa-brands--orcid text: ORCID href: https://orcid.org/000-0001-8413-234X --- diff --git a/team/task_contributors/jalil_nourisa/index.qmd b/team/task_contributors/perturbation_prediction/jalil_nourisa/index.qmd similarity index 82% rename from team/task_contributors/jalil_nourisa/index.qmd rename to team/task_contributors/perturbation_prediction/jalil_nourisa/index.qmd index 2a0509b7..6a54aa6d 100644 --- a/team/task_contributors/jalil_nourisa/index.qmd +++ b/team/task_contributors/perturbation_prediction/jalil_nourisa/index.qmd @@ -1,14 +1,14 @@ --- title: Jalil Nourisa image: https://www.github.com/janursa.png -role: Task Contributor +role: Contributor about: template: jolla links: - icon: bi-github text: GitHub href: https://github.com/janursa - - icon: fa-brands fa-orcid + - icon: fa-brands--orcid text: ORCID href: https://orcid.org/0000-0002-7539-4396 --- diff --git a/team/task_contributors/mengbo_wang/index.qmd b/team/task_contributors/perturbation_prediction/mengbo_wang/index.qmd similarity index 82% rename from team/task_contributors/mengbo_wang/index.qmd rename to team/task_contributors/perturbation_prediction/mengbo_wang/index.qmd index ba4f8fc6..daf20de7 100644 --- a/team/task_contributors/mengbo_wang/index.qmd +++ b/team/task_contributors/perturbation_prediction/mengbo_wang/index.qmd @@ -1,14 +1,14 @@ --- title: Mengbo Wang image: https://www.github.com/wangmengbo.png -role: Task Contributor +role: Contributor about: template: jolla links: - icon: bi-github text: GitHub href: https://github.com/wangmengbo - - icon: fa-brands fa-orcid + - icon: fa-brands--orcid text: ORCID href: https://orcid.org/0000-0002-0266-9993 --- diff --git a/team/task_contributors/rico_meinl/index.qmd b/team/task_contributors/perturbation_prediction/rico_meinl/index.qmd similarity index 82% rename from team/task_contributors/rico_meinl/index.qmd rename to team/task_contributors/perturbation_prediction/rico_meinl/index.qmd index e4fbc3e9..76e256e0 100644 --- a/team/task_contributors/rico_meinl/index.qmd +++ b/team/task_contributors/perturbation_prediction/rico_meinl/index.qmd @@ -1,14 +1,14 @@ --- title: Rico Meinl image: https://www.github.com/ricomnl.png -role: Task Contributor +role: Contributor about: template: jolla links: - icon: bi-github text: GitHub href: https://github.com/ricomnl - - icon: fa-brands fa-orcid + - icon: fa-brands--orcid text: ORCID href: https://orcid.org/0000-0003-4356-6058 --- diff --git a/team/task_contributors/tianyu_liu/index.qmd b/team/task_contributors/perturbation_prediction/tianyu_liu/index.qmd similarity index 82% rename from team/task_contributors/tianyu_liu/index.qmd rename to team/task_contributors/perturbation_prediction/tianyu_liu/index.qmd index 7e407384..b9742323 100644 --- a/team/task_contributors/tianyu_liu/index.qmd +++ b/team/task_contributors/perturbation_prediction/tianyu_liu/index.qmd @@ -1,14 +1,14 @@ --- title: Tianyu Liu image: https://www.github.com/HelloWorldLTY.png -role: Task Contributor +role: Contributor about: template: jolla links: - icon: bi-github text: GitHub href: https://github.com/HelloWorldLTY - - icon: fa-brands fa-orcid + - icon: fa-brands--orcid text: ORCID href: https://orcid.org/0000-0002-9412-6573 --- diff --git a/team/task_contributors/tin_m_tunjic/index.qmd b/team/task_contributors/perturbation_prediction/tin_m_tunjic/index.qmd similarity index 82% rename from team/task_contributors/tin_m_tunjic/index.qmd rename to team/task_contributors/perturbation_prediction/tin_m_tunjic/index.qmd index c4d9c05c..29ea24d5 100644 --- a/team/task_contributors/tin_m_tunjic/index.qmd +++ b/team/task_contributors/perturbation_prediction/tin_m_tunjic/index.qmd @@ -1,14 +1,14 @@ --- title: Tin M. Tunjic image: https://www.github.com/ttunja.png -role: Task Contributor +role: Contributor about: template: jolla links: - icon: bi-github text: GitHub href: https://github.com/ttunja - - icon: fa-brands fa-orcid + - icon: fa-brands--orcid text: ORCID href: https://orcid.org/0000-0001-8842-6548 --- diff --git a/team/task_contributors/alejandro_granados/index.qmd b/team/task_contributors/predict_modality/alejandro_granados/index.qmd similarity index 89% rename from team/task_contributors/alejandro_granados/index.qmd rename to team/task_contributors/predict_modality/alejandro_granados/index.qmd index ea22612e..9dfd4f4e 100644 --- a/team/task_contributors/alejandro_granados/index.qmd +++ b/team/task_contributors/predict_modality/alejandro_granados/index.qmd @@ -1,7 +1,7 @@ --- title: Alejandro Granados image: https://www.github.com/agranado.png -role: Task Contributor +role: Author about: template: jolla links: diff --git a/team/task_contributors/alex_tong/index.qmd b/team/task_contributors/predict_modality/alex_tong/index.qmd similarity index 88% rename from team/task_contributors/alex_tong/index.qmd rename to team/task_contributors/predict_modality/alex_tong/index.qmd index e839bde0..9ff5cc19 100644 --- a/team/task_contributors/alex_tong/index.qmd +++ b/team/task_contributors/predict_modality/alex_tong/index.qmd @@ -1,7 +1,7 @@ --- title: Alex Tong image: https://www.github.com/atong01.png -role: Task Contributor +role: Author about: template: jolla links: diff --git a/team/task_contributors/bastian_rieck/index.qmd b/team/task_contributors/predict_modality/bastian_rieck/index.qmd similarity index 89% rename from team/task_contributors/bastian_rieck/index.qmd rename to team/task_contributors/predict_modality/bastian_rieck/index.qmd index c706d0e3..7d2d47ba 100644 --- a/team/task_contributors/bastian_rieck/index.qmd +++ b/team/task_contributors/predict_modality/bastian_rieck/index.qmd @@ -1,7 +1,7 @@ --- title: Bastian Rieck image: https://www.github.com/Pseudomanifold.png -role: Task Contributor +role: Author about: template: jolla links: diff --git a/team/task_contributors/predict_modality/kai_waldrant/index.qmd b/team/task_contributors/predict_modality/kai_waldrant/index.qmd new file mode 100644 index 00000000..d148ef4e --- /dev/null +++ b/team/task_contributors/predict_modality/kai_waldrant/index.qmd @@ -0,0 +1,15 @@ +--- +title: Kai Waldrant +image: https://www.github.com/KaiWaldrant.png +role: Contributor +about: + template: jolla + links: + - icon: bi-github + text: GitHub + href: https://github.com/KaiWaldrant + - icon: fa-brands--orcid + text: ORCID + href: https://orcid.org/0009-0003-8555-1361 +--- + diff --git a/team/task_contributors/kaiwen_deng/index.qmd b/team/task_contributors/predict_modality/kaiwen_deng/index.qmd similarity index 91% rename from team/task_contributors/kaiwen_deng/index.qmd rename to team/task_contributors/predict_modality/kaiwen_deng/index.qmd index 1d3fff28..f2272c87 100644 --- a/team/task_contributors/kaiwen_deng/index.qmd +++ b/team/task_contributors/predict_modality/kaiwen_deng/index.qmd @@ -1,7 +1,7 @@ --- title: Kaiwen Deng image: https://www.github.com/nonztalk.png -role: Task Contributor +role: Contributor about: template: jolla links: diff --git a/team/task_contributors/louise_deconinck/index.qmd b/team/task_contributors/predict_modality/louise_deconinck/index.qmd similarity index 89% rename from team/task_contributors/louise_deconinck/index.qmd rename to team/task_contributors/predict_modality/louise_deconinck/index.qmd index 2441d0b7..aad556a3 100644 --- a/team/task_contributors/louise_deconinck/index.qmd +++ b/team/task_contributors/predict_modality/louise_deconinck/index.qmd @@ -1,7 +1,7 @@ --- title: Louise Deconinck image: https://www.github.com/LouiseDck.png -role: Task Contributor +role: Author about: template: jolla links: diff --git a/team/task_contributors/spatial_decomposition/alma_andersson/index.qmd b/team/task_contributors/spatial_decomposition/alma_andersson/index.qmd new file mode 100644 index 00000000..e554b1e6 --- /dev/null +++ b/team/task_contributors/spatial_decomposition/alma_andersson/index.qmd @@ -0,0 +1,12 @@ +--- +title: Alma Andersson +image: https://www.github.com/almaan.png +role: Author, Maintainer +about: + template: jolla + links: + - icon: bi-github + text: GitHub + href: https://github.com/almaan +--- + diff --git a/team/task_contributors/spatial_decomposition/can_ergen/index.qmd b/team/task_contributors/spatial_decomposition/can_ergen/index.qmd new file mode 100644 index 00000000..825a2527 --- /dev/null +++ b/team/task_contributors/spatial_decomposition/can_ergen/index.qmd @@ -0,0 +1,12 @@ +--- +title: Can Ergen +image: https://www.github.com/canergen.png +role: Contributor +about: + template: jolla + links: + - icon: bi-github + text: GitHub + href: https://github.com/canergen +--- + diff --git a/team/task_contributors/giovanni_palla/index.qmd b/team/task_contributors/spatial_decomposition/giovanni_palla/index.qmd similarity index 87% rename from team/task_contributors/giovanni_palla/index.qmd rename to team/task_contributors/spatial_decomposition/giovanni_palla/index.qmd index f16d4ba8..6e30cc23 100644 --- a/team/task_contributors/giovanni_palla/index.qmd +++ b/team/task_contributors/spatial_decomposition/giovanni_palla/index.qmd @@ -1,7 +1,7 @@ --- title: Giovanni Palla image: https://www.github.com/giovp.png -role: Task Contributor +role: Author, Maintainer about: template: jolla links: diff --git a/team/task_contributors/spatial_decomposition/hirak_sarkar/index.qmd b/team/task_contributors/spatial_decomposition/hirak_sarkar/index.qmd new file mode 100644 index 00000000..08e0ea4a --- /dev/null +++ b/team/task_contributors/spatial_decomposition/hirak_sarkar/index.qmd @@ -0,0 +1,12 @@ +--- +title: Hirak Sarkar +image: https://www.github.com/hiraksarkar.png +role: Author +about: + template: jolla + links: + - icon: bi-github + text: GitHub + href: https://github.com/hiraksarkar +--- + diff --git a/team/task_contributors/spatial_decomposition/sai_nirmayi_yasa/index.qmd b/team/task_contributors/spatial_decomposition/sai_nirmayi_yasa/index.qmd new file mode 100644 index 00000000..426e9b0d --- /dev/null +++ b/team/task_contributors/spatial_decomposition/sai_nirmayi_yasa/index.qmd @@ -0,0 +1,15 @@ +--- +title: Sai Nirmayi Yasa +image: https://www.github.com/sainirmayi.png +role: Contributor +about: + template: jolla + links: + - icon: bi-github + text: GitHub + href: https://github.com/sainirmayi + - icon: fa-brands--orcid + text: ORCID + href: https://orcid.org/0009-0003-6319-9803 +--- + diff --git a/team/task_contributors/spatial_decomposition/vitalii_kleshchevnikov/index.qmd b/team/task_contributors/spatial_decomposition/vitalii_kleshchevnikov/index.qmd new file mode 100644 index 00000000..6c62aac2 --- /dev/null +++ b/team/task_contributors/spatial_decomposition/vitalii_kleshchevnikov/index.qmd @@ -0,0 +1,12 @@ +--- +title: Vitalii Kleshchevnikov +image: https://www.github.com/vitkl.png +role: Author +about: + template: jolla + links: + - icon: bi-github + text: GitHub + href: https://github.com/vitkl +--- + diff --git a/team/task_contributors/dongyuan_song/index.qmd b/team/task_contributors/spatially_variable_genes/dongyuan_song/index.qmd similarity index 89% rename from team/task_contributors/dongyuan_song/index.qmd rename to team/task_contributors/spatially_variable_genes/dongyuan_song/index.qmd index 5b3dea92..64f7a4f6 100644 --- a/team/task_contributors/dongyuan_song/index.qmd +++ b/team/task_contributors/spatially_variable_genes/dongyuan_song/index.qmd @@ -1,7 +1,7 @@ --- title: Dongyuan Song image: https://www.github.com/SONGDONGYUAN1994.png -role: Task Contributor +role: Author about: template: jolla links: diff --git a/team/task_contributors/spatially_variable_genes/guanao_yan/avatar.png b/team/task_contributors/spatially_variable_genes/guanao_yan/avatar.png new file mode 100644 index 00000000..58127be6 Binary files /dev/null and b/team/task_contributors/spatially_variable_genes/guanao_yan/avatar.png differ diff --git a/team/task_contributors/guanao_yan/index.qmd b/team/task_contributors/spatially_variable_genes/guanao_yan/index.qmd similarity index 56% rename from team/task_contributors/guanao_yan/index.qmd rename to team/task_contributors/spatially_variable_genes/guanao_yan/index.qmd index 59fcb71e..9b6b04fd 100644 --- a/team/task_contributors/guanao_yan/index.qmd +++ b/team/task_contributors/spatially_variable_genes/guanao_yan/index.qmd @@ -1,7 +1,7 @@ --- title: Guanao Yan -image: /images/avatar.svg -role: Task Contributor +image: avatar.png +role: Author about: template: jolla links: [] diff --git a/team/task_contributors/jingyi_jessica_li/index.qmd b/team/task_contributors/spatially_variable_genes/jingyi_jessica_li/index.qmd similarity index 88% rename from team/task_contributors/jingyi_jessica_li/index.qmd rename to team/task_contributors/spatially_variable_genes/jingyi_jessica_li/index.qmd index 82a5d311..b73ffe97 100644 --- a/team/task_contributors/jingyi_jessica_li/index.qmd +++ b/team/task_contributors/spatially_variable_genes/jingyi_jessica_li/index.qmd @@ -1,7 +1,7 @@ --- title: Jingyi Jessica Li image: https://www.github.com/JSB-UCLA.png -role: Task Contributor +role: Author about: template: jolla links: diff --git a/team/task_contributors/luca_pinello/index.qmd b/team/task_contributors/spatially_variable_genes/luca_pinello/index.qmd similarity index 88% rename from team/task_contributors/luca_pinello/index.qmd rename to team/task_contributors/spatially_variable_genes/luca_pinello/index.qmd index b6d55be2..b958a224 100644 --- a/team/task_contributors/luca_pinello/index.qmd +++ b/team/task_contributors/spatially_variable_genes/luca_pinello/index.qmd @@ -1,7 +1,7 @@ --- title: Luca Pinello image: https://www.github.com/pinellolab.png -role: Task Contributor +role: Author about: template: jolla links: diff --git a/team/task_contributors/spatially_variable_genes/sai_nirmayi_yasa/index.qmd b/team/task_contributors/spatially_variable_genes/sai_nirmayi_yasa/index.qmd new file mode 100644 index 00000000..426e9b0d --- /dev/null +++ b/team/task_contributors/spatially_variable_genes/sai_nirmayi_yasa/index.qmd @@ -0,0 +1,15 @@ +--- +title: Sai Nirmayi Yasa +image: https://www.github.com/sainirmayi.png +role: Contributor +about: + template: jolla + links: + - icon: bi-github + text: GitHub + href: https://github.com/sainirmayi + - icon: fa-brands--orcid + text: ORCID + href: https://orcid.org/0009-0003-6319-9803 +--- + diff --git a/team/task_contributors/zain_m_patel/index.qmd b/team/task_contributors/spatially_variable_genes/zain_m_patel/index.qmd similarity index 88% rename from team/task_contributors/zain_m_patel/index.qmd rename to team/task_contributors/spatially_variable_genes/zain_m_patel/index.qmd index 7c27c042..e4472a27 100644 --- a/team/task_contributors/zain_m_patel/index.qmd +++ b/team/task_contributors/spatially_variable_genes/zain_m_patel/index.qmd @@ -1,7 +1,7 @@ --- title: Zain M. Patel image: https://www.github.com/doczmp.png -role: Task Contributor +role: Author about: template: jolla links: diff --git a/team/task_contributors/zhijian_li/index.qmd b/team/task_contributors/spatially_variable_genes/zhijian_li/index.qmd similarity index 82% rename from team/task_contributors/zhijian_li/index.qmd rename to team/task_contributors/spatially_variable_genes/zhijian_li/index.qmd index 5c1bdae1..e774a1b9 100644 --- a/team/task_contributors/zhijian_li/index.qmd +++ b/team/task_contributors/spatially_variable_genes/zhijian_li/index.qmd @@ -1,14 +1,14 @@ --- title: Zhijian Li image: https://www.github.com/lzj1769.png -role: Task Contributor +role: Author, Maintainer about: template: jolla links: - icon: bi-github text: GitHub href: https://github.com/lzj1769 - - icon: fa-brands fa-orcid + - icon: fa-brands--orcid text: ORCID href: https://orcid.org/0000-0002-1523-1333 --- diff --git a/team/task_contributors/xueer_chen/index.qmd b/team/task_contributors/xueer_chen/index.qmd deleted file mode 100644 index 36a9df3e..00000000 --- a/team/task_contributors/xueer_chen/index.qmd +++ /dev/null @@ -1,15 +0,0 @@ ---- -title: Xueer Chen -image: https://www.github.com/xuerchen.png -role: Task Contributor -about: - template: jolla - links: - - icon: bi-github - text: GitHub - href: https://github.com/xuerchen - - icon: bi-envelope - text: E-mail - href: mailto:xc2579@columbia.edu ---- - diff --git a/team/team.css b/team/team.css index 100ffefc..9afd04aa 100644 --- a/team/team.css +++ b/team/team.css @@ -68,3 +68,21 @@ margin: 0.1em; text-decoration: none; } + + +/* Custom icons */ + +.fa-brands--orcid { + display: inline-block; + width: 1em; + height: 1em; + --svg: url("data:image/svg+xml,%3Csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 512 512'%3E%3Cpath fill='%23000' d='M294.75 188.19h-45.92V342h47.47c67.62 0 83.12-51.34 83.12-76.91c0-41.64-26.54-76.9-84.67-76.9M256 8C119 8 8 119 8 256s111 248 248 248s248-111 248-248S393 8 256 8m-80.79 360.76h-29.84v-207.5h29.84zm-14.92-231.14a19.57 19.57 0 1 1 19.57-19.57a19.64 19.64 0 0 1-19.57 19.57M300 369h-81V161.26h80.6c76.73 0 110.44 54.83 110.44 103.85C410 318.39 368.38 369 300 369'/%3E%3C/svg%3E"); + background-color: currentColor; + -webkit-mask-image: var(--svg); + mask-image: var(--svg); + -webkit-mask-repeat: no-repeat; + mask-repeat: no-repeat; + -webkit-mask-size: 100% 100%; + mask-size: 100% 100%; + vertical-align: -.125em; +} \ No newline at end of file