diff --git a/.circleci/config.yml b/.circleci/config.yml index a90f6f955..d260498de 100644 --- a/.circleci/config.yml +++ b/.circleci/config.yml @@ -5,7 +5,7 @@ orbs: .dockersetup: &dockersetup docker: - - image: pennlinc/xcp_d_build:0.0.6rc15 + - image: pennlinc/xcp_d_build:0.0.7 working_directory: /src/xcp_d runinstall: diff --git a/Dockerfile b/Dockerfile index 66fc65876..b8d503252 100644 --- a/Dockerfile +++ b/Dockerfile @@ -1,4 +1,4 @@ -FROM pennlinc/xcp_d_build:0.0.6rc15 +FROM pennlinc/xcp_d_build:0.0.7 # Install xcp_d COPY . /src/xcp_d diff --git a/docs/links.rst b/docs/links.rst index 2193dcdbc..6f5222391 100644 --- a/docs/links.rst +++ b/docs/links.rst @@ -10,3 +10,5 @@ .. _`Docker installation`: https://docs.docker.com/install/ .. _`Docker Hub`: https://hub.docker.com/r/pennlinc/xcp_d/tags .. _`Singularity`: https://sylabs.io/guides/3.5/user-guide/introduction.html +.. _`QSIPrep`: https://qsiprep.readthedocs.io +.. _`ASLPrep`: https://aslprep.readthedocs.io diff --git a/docs/outputs.rst b/docs/outputs.rst index ccf1b29be..fa6b0bb69 100644 --- a/docs/outputs.rst +++ b/docs/outputs.rst @@ -5,16 +5,16 @@ Outputs of *XCP-D* ################## -The ``xcp_d`` outputs are written out in BIDS format and consist of three main parts. +The *XCP-D* outputs are written out in BIDS format and consist of three main parts. .. admonition:: A note on BIDS compliance - ``xcp_d`` attempts to follow the BIDS specification as best as possible. - However, many ``xcp_d`` derivatives are not currently covered by the specification. + *XCP-D* attempts to follow the BIDS specification as best as possible. + However, many *XCP-D* derivatives are not currently covered by the specification. In those instances, we attempt to follow recommendations from existing BIDS Extension Proposals (BEPs), which are in-progress proposals to add new features to BIDS. - Three BEPs that are of particular use in ``xcp_d`` are + Three BEPs that are of particular use in *XCP-D* are `BEP012: Functional preprocessing derivatives `_, `BEP017: BIDS connectivity matrix data schema `_, and @@ -24,8 +24,8 @@ The ``xcp_d`` outputs are written out in BIDS format and consist of three main In cases where a derivative type is not covered by an existing BEP, we have simply attempted to follow the general principles of BIDS. - If you discover a problem with the BIDS compliance of ``xcp_d``'s derivatives, please open an - issue in the ``xcp_d`` repository. + If you discover a problem with the BIDS compliance of *XCP-D*'s derivatives, please open an + issue in the *XCP-D* repository. *************** @@ -44,6 +44,33 @@ The executive summary is based on the DCAN lab's sub-