doc+enh: update docker dcm2niix, add entry to changelog

Author: mgxd

CHANGELOG.md

@@ -15,7 +15,7 @@ Bugfix release
   - series_uid
 - Reproin heuristic support for xnat
 ### Changed
-- Dockerfile updated to use `dcm2niix v1.0.20180328`
+- Dockerfile updated to use `dcm2niix v1.0.20180622`
 - Conversion table will be regenerated if heurisic has changed
 - Do not touch existing BIDS files
   - events.tsv
@@ -27,6 +27,9 @@ Bugfix release
   - `pydicom` 1.0.2
 - Later versions of `pydicom` are prioritized first
 - JSON pretty print should not remove spaces
+- Phasediff fieldmaps behavior
+  - ensure phasediff exists
+  - support for single magnitude acquisitions
 
 ## [0.5] - 2018-03-01
 The first release after major refactoring:

Dockerfile

@@ -5,7 +5,7 @@
 # pull request on our GitHub repository:
 #     https://github.com/kaczmarj/neurodocker
 #
-# Timestamp: 2018-05-14 16:30:58
+# Timestamp: 2018-06-29 18:14:08
 
 FROM debian:stretch
 
@@ -33,15 +33,15 @@ RUN apt-get update -qq && apt-get install -yq --no-install-recommends  \
 ENTRYPOINT ["/neurodocker/startup.sh"]
 
 #------------------------
-# Install dcm2niix v1.0.20180328
+# Install dcm2niix v1.0.20180622
 #------------------------
 WORKDIR /tmp
 RUN deps='cmake g++ gcc git make pigz zlib1g-dev' \
     && apt-get update -qq && apt-get install -yq --no-install-recommends $deps \
     && apt-get clean \
     && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* \
     && mkdir dcm2niix \
-    && curl -sSL https://github.com/rordenlab/dcm2niix/tarball/v1.0.20180328 | tar xz -C dcm2niix --strip-components 1 \
+    && curl -sSL https://github.com/rordenlab/dcm2niix/tarball/v1.0.20180622 | tar xz -C dcm2niix --strip-components 1 \
     && mkdir dcm2niix/build && cd dcm2niix/build \
     && cmake .. && make \
     && make install \
@@ -120,7 +120,7 @@ RUN echo '{ \
     \n    [ \
     \n      "dcm2niix", \
     \n      { \
-    \n        "version": "v1.0.20180328" \
+    \n        "version": "v1.0.20180622" \
     \n      } \
     \n    ], \
     \n    [ \
@@ -160,6 +160,6 @@ RUN echo '{ \
     \n      "/neurodocker/startup.sh heudiconv" \
     \n    ] \
     \n  ], \
-    \n  "generation_timestamp": "2018-05-14 16:30:58", \
+    \n  "generation_timestamp": "2018-06-29 18:14:08", \
     \n  "neurodocker_version": "0.3.2" \
     \n}' > /neurodocker/neurodocker_specs.json

utils/gen-docker-image.sh

@@ -5,7 +5,7 @@ set -eu
 VER=$(grep -Po '(?<=^__version__ = ).*' ../heudiconv/info.py | sed 's/"//g')
 
 docker run --rm kaczmarj/neurodocker:v0.3.2 generate -b debian:stretch -p apt \
-    --dcm2niix version=v1.0.20180328 \
+    --dcm2niix version=v1.0.20180622 \
     --neurodebian os_codename=stretch download_server=usa-nh pkgs=git-annex-standalone \
     --install git gcc pigz \
     --copy . /src/heudiconv \