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Instructions for Completion of Phase II/OT Science Programs: Semester 2008B


This page provides instructions for completing Phase II Science Programs for all Gemini North and Gemini South instruments. It includes submission details and procedural changes. Please read this page carefully!



 Deadlines and Mechanism for Return of Completed Science Programs

As in the previous semester the Phase II deadline is a hard deadline for queue programs. Programs that have not completed their Phase II definitions by the deadline will be dropped from the queue. 

The mechanism for submitting your completed Phase II Science Program isby using the Store command in the Observing Tool and is the samefor all instruments.  See the Observing Database information for more details. 

Dates for submission of completed Phase II information are (all 6pm local time): 


Phase II deadlines for all instruments
Deadline Notes
14 July 2008 Mandatory deadline for all queue programs.  
1st and 15th of each month Deadlines for GMOS mask design and MOS updates 
4 August 2008
3 September 2008
26 September 2008
3 November 2008
1 December 2008
15 January 2009
Dates of preparation of LGS targets lists by Gemini staff for approval by Space Command. Change requests for target additions and alterations must be made well in advance of these dates for the target to be included in the next LGS run, and observations set to "ready" at least two days prior. (These restrictions do not apply to LGS programs granted ToO status.)

The mandatory deadline applies to all queue programsincluding templates for Quick Response / ToO observations.  Themask design deadlines are more flexible but we encourage PIs to submittheir mask designs and final MOS observations as early aspossible. The LGS target list preparation dates are subject to changeif LGS runs are rescheduled.

PIs of all classical programs must alsosubmit Phase II observation definitions. The deadline for these is threeweeks prior to the first scheduled night

Programs that have not completed their Phase II definitions by the deadline noted above will be dropped from the queue or schedule. In exceptional cases an exemption may be requested by emailing the Heads of Science Operations(,

In some cases GMOS PIs may be contacted directly and asked to submit theirPhase II early to provide sufficient observations for pre-imaging and MOSspectroscopy at the very start of the semester. All MOS pre-imaging observationdescriptions must be submitted by the regular deadline (see table above).


Distribution of Phase II Skeletons

All observations must be defined using the Observing Tool (OT) software. Gemini staff have translated approved Phase I proposals into the Phase II format for loading into the OT. In this process, the observations and other details entered in Phase I are used to construct a ("skeleton") framework of your Science Program.

Instructions on skeleton retrieval were sent to PIs during the week of December 8. As in previous semesters, the Phase II skeletons are downloaded/uploaded directly from/to the Gemini telescope databases to enable more efficient and rapid processing. See moreinformation on using the Observing Database.

A new release of the OT is available to support Semester 2009A Phase II preparation (as well as on-going 2008A and 2008B programs);do not use the previous "2008B" public release There are OT installation instructions available. If you are unfamiliar with the OT, there is an OT tutorial that provides a useful introduction. In addition, each instrument also has several web pages thatprovide guidance on observing strategies and how to describe these in the OT. OT libraries with example observations and configurations for each instrument can also be fetched.

Relaxation of Observing Condition Constraints and Other Observation Changes

For semester 2009A the queue was constructed by filling the expected observing conditions (and overfilling the poorer than average conditions) but limited to the total available queue time (i.e. the total science timeless scheduled classical nights and estimated Band 1 rollover programs). Band 3 programs, which occupy the lowest half of the queue, are unlikely to be executed, and very unlikely to be completed, if they request conditionsthat are better than average (especially in cloud cover and image quality).

Programs in Band 3 will be expected to use the relaxed Band 3 conditions that were specified duringPhase I. It is always acceptable to relax the conditions even moresince more relaxed conditions leads to a higher probability ofexecution (see Advice for Band 3 PIs).  One useful analogy is to consider "how would I attempt this program if it were classically scheduled and the conditions were sub-optimal?".

In semester 2009A we are continuing the "poor weather queue" to fill telescope time under very poor, but usable, conditions. Poor weather proposals can be submitted at any time using the PIT.

The Observing Conditions component now also makes it possible to add airmass or hour angle constraints. While needed for some programs, use of these constraints is equivalent to a change to better conditions constraints than approved by the ITAC.  Therefore, any use of the airmass or hour angle constraints requires approval via the change request procedure.

If during detailed definition you find that the approved observations need to be modified, please follow the change request procedure.

User Support

The National Gemini Offices are responsible for Phase II support for the "established" facility andvisiting instruments as mandated by the Gemini Board. Phase II support for theother instruments remains with the Gemini Observatory staff. In outline, thePhase II process for the established instruments is asfollows:

  • PIs interact with NGO support staff to complete Phase II using the OT for all observations with NIRI (including Altair), Phoenix, both GMOSs (including MOS mask design), T-ReCS, GNIRS and Michelle.
  • All Phase II Science Programs are checked by NGO staff prior to being forwarded to the Gemini Contact Scientist. (Note that Gemini CSs will return any Phase II programs that are received directly from PIs, with instructions to contact their NGO).
  • Gemini Contact Scientist checks Phase II Science Programs; if there is any problem the Science Program will be returned to the NGO support staff. The NGO staff will then iterate further with the PI.
  • Only when the Gemini Contact Scientist agrees that the Science Program is ready will it be activated in the queue for execution. The PI will be notified that their program is in the active queue and that the Gemini CS is now the primary contact point.

You can help us and speed this process by checking the program yourself (see the OT/Phase II checklist and instrument-specific checklists on the OT instrument component pages). 

If you wish to change the primary contact for this program, e.g. to a co-I, please e-mail Rosemary Pike (rpike at with a copy to the Gemini Heads of Science Operations (ijorgensen at, brodgers at and a copy to your National Gemini office.

To help us in tracking and resolving user problems,questions and suggestions, and thereby improving the software and web pages, please usethe Gemini HelpDesk. This allows us to ensure that no queries are missed andhelp us improve the software and documentation. Astreamlined interface is available for Phase II queries, keyed to your Gemini Program ID (e.g.GS-2006B-Q-12). As with the regular HelpDesk interface, your query will bedirected to the specific NGO or Gemini support staff. Supportassignments do change occasionally and you can verify the contact namesfrom the "interactive snapshot" of the Observing Database, accessedfrom the contents list on the schedules web page. (The NGO and Gemini support staff email addresses are listed on the support staff web page).

OT and Other Late-Breaking Changes for 2009A

The principal changes to the OT software are listed on the OT Release Notes page. There arealso several new policy changes. Here we summarise how they affectPhase II observation definition and point the user to further details.

GMOS mask designs without GMOS pre-imaging

We have implemented the capability for the design of GMOS MOS masks fromany available imaging with good astrometry. This has thepotential to save observing time since pre-imaging with GMOS will nolonger be required.  In 2008B is offered on an "at risk"basis. PIs who are interested in utilizing this shouldinform their contact scientists.

 Updated GMOS GCAL exposure tables

The exposure tables for GMOS arcs and flats using GCAL have been updated. The new table includes images of example calibration spectra. The GMOS OT libraries have been updated accordingly.

 Major new OT capabilities and procedure changes  

  • Target duplication feature
  • In Review observation status. NGO staff will use this status to prevent observations from being edited while they are being reviewed. In order to avoid the unexpected loss of any work, PIs should always fetch their program before making changes and should not make any changes to observations stored with status For Review until the NGO contact as set the status back to Phase 2. Exporting a program to a XML file before storing is also recommended.
  • NICI offset iterator and other NICI instrument componet change

Notification of Data Taken and Electronic Distribution

The "Notify PI" checkbox in the OT observation component is not yet active. Nonetheless, raw data are available "immediately" (usually within minutes) from the Gemini Science Archive using your OT (observing database) key for secure access to proprietary data. PIs will be notified by email once their data have been quality assessed and ingested into the archive and are available as a package along with other metadata (observing logs, calibrations etc). See more information about data retrieval from GSA

Status of Submitted Programs and Observations

The queue summary and "interactive database snapshot" pages show the current execution status of all queue programs andindicates when data have been taken. (For the next level of detail,click on the "execution status" link under each program to see the status of each observation or on the execution log links in the contents list to see which observations were executed each night).